Debian Med Covid-19 packages

Official Debian packages with high relevance

abacas ??? missing short description for package abacas :-( http://abacas.sourceforge.net/ Maintainer: Debian Med Packaging Team (Nilesh Patra)	Versions of package abacas Release Version Architectures forky 1.3.1-10 all sid 1.3.1-10 all bullseye 1.3.1-9 all bookworm 1.3.1-9 all trixie 1.3.1-9 all Debtags of package abacas: role program Popcon: 5 users (33 upd.)* Versions and Archs Edit Debtags	License: DFSG free Official Debian package Git Translate description
The package is enhanced by the following packages: abacas-examples Please cite: Samuel Assefa, Thomas M. Keane, Thomas D. Otto, Chris Newbold and Matthew Berriman: ABACAS: algorithm-based automatic contiguation of assembled sequences. (PubMed,eprint) Bioinformatics 25(15):1968-1969 (2009) Topics: Probes and primers		Upload screenshot

abyss ??? missing short description for package abyss :-( https://github.com/bcgsc/abyss Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package abyss Release Version Architectures forky 2.3.10-2 amd64,arm64,ppc64el,riscv64,s390x bullseye 2.2.5+dfsg-1 amd64,arm64,armhf,i386 bookworm 2.3.5+dfsg-2 amd64,arm64,mips64el,ppc64el,s390x trixie 2.3.10-1 amd64,arm64,ppc64el,riscv64,s390x sid 2.3.10-2 amd64,arm64,loong64,ppc64el,riscv64,s390x Debtags of package abyss: role program Popcon: 7 users (36 upd.)* Versions and Archs Edit Debtags	License: DFSG free Official Debian package Git Translate description
Please cite: Shaun D. Jackman, Benjamin P. Vandervalk, Hamid Mohamadi, Justin Chu, Sarah Yeo, S. Austin Hammond, Golnaz Jahesh, Hamza Khan, Lauren Coombe, Rene L. Warren and İnanç Birol: "ABySS 2.0: resource-efficient assembly of large genomes using a Bloom filter". (PubMed,eprint) Genome Research 27(5):768-777 (2017) Registry entries: Bio.tools  SciCrunch  Bioconda  Topics: Sequence assembly		Upload screenshot

allelecount ??? missing short description for package allelecount :-( https://github.com/cancerit/alleleCount Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package allelecount Release Version Architectures bookworm 4.3.0-2 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x sid 4.3.0-4 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bullseye 4.2.1-1 amd64,arm64,armhf,i386 forky 4.3.0-4 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x trixie 4.3.0-3 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x Popcon: 0 users (0 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Registry entries: Bioconda		Upload screenshot

assembly-stats ??? missing short description for package assembly-stats :-( https://github.com/sanger-pathogens/assembly-stats Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package assembly-stats Release Version Architectures sid 1.0.1+ds-8 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bullseye 1.0.1+ds-3 amd64,arm64,armhf,i386 forky 1.0.1+ds-8 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x trixie 1.0.1+ds-6 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x bookworm 1.0.1+ds-6 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x Popcon: 4 users (34 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Registry entries: Bioconda		Upload screenshot

augur ??? missing short description for package augur :-( https://github.com/nextstrain/augur Maintainer: Debian Med Packaging Team (Michael R. Crusoe)	Versions of package augur Release Version Architectures bullseye 11.0.0-1 all sid 24.4.0-3 all forky 24.4.0-3 all trixie 24.4.0-1 all bookworm 20.0.0-1 all upstream 33.3.0 Popcon: 8 users (32 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
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bamclipper ??? missing short description for package bamclipper :-( https://github.com/tommyau/bamclipper Maintainer: Debian Med Packaging Team (Andreas Tille)	Versions of package bamclipper Release Version Architectures forky 1.0.0-3 all trixie 1.0.0-3 all bookworm 1.0.0-3 all sid 1.0.0-3 all Popcon: 2 users (35 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Chun Hang Au, Dona N Ho, Ava Kwong, Tsun Leung Chan and Edmond S K Ma: BAMClipper: removing primers from alignments to minimize false-negative mutations in amplicon next-generation sequencing. (PubMed,eprint) Scientific Reports 7(1):1567 (2017) Registry entries: Bioconda		Upload screenshot

bamkit ??? missing short description for package bamkit :-( https://github.com/hall-lab/bamkit Maintainer: Debian Med Packaging Team (Shruti Sridhar)	Versions of package bamkit Release Version Architectures bullseye 0.0.1+git20170413.ccd079d-2 all bookworm 0.0.1+git20170413.ccd079d-3 all sid 0.0.1+git20170413.ccd079d-3 all forky 0.0.1+git20170413.ccd079d-3 all trixie 0.0.1+git20170413.ccd079d-3 all Popcon: 11 users (34 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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bbmap ??? missing short description for package bbmap :-( https://sourceforge.net/projects/bbmap/ Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package bbmap Release Version Architectures sid 39.20+dfsg-3 all forky 39.20+dfsg-3 all trixie 39.20+dfsg-2 all bookworm 39.01+dfsg-2 all bullseye 38.90+dfsg-1 all upstream 39.86 Popcon: 9 users (34 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
The package is enhanced by the following packages: multiqc Please cite: Brian Bushnell, Jonathan Rood and Esther Singer: BBMerge – Accurate paired shotgun read merging via overlap. (PubMed,eprint) PLOS One (2017) Registry entries: Bio.tools  SciCrunch  Bioconda		Upload screenshot

bcalm ??? missing short description for package bcalm :-( https://github.com/GATB/bcalm Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package bcalm Release Version Architectures bookworm 2.2.3-4 amd64,arm64,mips64el,ppc64el bullseye 2.2.3-1 amd64,arm64,i386 forky 2.2.3-6 amd64,arm64,loong64,ppc64el,riscv64 trixie 2.2.3-5 amd64,arm64,ppc64el,riscv64 sid 2.2.3-6 amd64,arm64,loong64,ppc64el,riscv64 Popcon: 4 users (36 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Rayan Chikhi, Antoine Limasset and Paul Medvedev: Compacting de Bruijn graphs from sequencing data quickly and in low memory.. (eprint) Bioinformatics 32(12):208 (2016)		Upload screenshot

bcftools ??? missing short description for package bcftools :-( https://samtools.github.io/bcftools/ Maintainer: Debian Med Packaging Team (Steffen Möller)	Versions of package bcftools Release Version Architectures bookworm 1.16-1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el sid 1.22-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bullseye 1.11-1 amd64,arm64,armhf,i386 trixie 1.21-1 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x forky 1.22-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x upstream 1.23.1 Popcon: 19 users (41 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
The package is enhanced by the following packages: multiqc Please cite: Petr Danecek and Shane A. McCarthy: BCFtools/csq: Haplotype-aware variant consequences. (2016) Registry entries: Bio.tools  SciCrunch  Bioconda		Upload screenshot

bedtools ??? missing short description for package bedtools :-( https://github.com/arq5x/bedtools2 Maintainer: Debian Med Packaging Team (Andreas Tille)	Versions of package bedtools Release Version Architectures sid 2.31.1+dfsg-3 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x trixie 2.31.1+dfsg-2 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x bullseye 2.30.0+dfsg-1 amd64,arm64,armhf,i386 bookworm 2.30.0+dfsg-3 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x forky 2.31.1+dfsg-3 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x Debtags of package bedtools: field biology, biology:bioinformatics interface commandline role program scope suite use analysing, comparing, converting, filtering works-with biological-sequence Popcon: 59 users (117 upd.)* Versions and Archs Edit Debtags	License: DFSG free Official Debian package Git Translate description
Please cite: Aaron R. Quinlan and Ira M. Hall: BEDTools: a flexible suite of utilities for comparing genomic features. (PubMed,eprint) Bioinformatics 26(6):841-842 (2010) Registry entries: Bio.tools  SciCrunch  Bioconda		Upload screenshot

biobambam2 ??? missing short description for package biobambam2 :-( https://gitlab.com/german.tischler/biobambam2 Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package biobambam2 Release Version Architectures forky 2.0.185+ds-2 amd64,loong64,ppc64el,riscv64 bookworm 2.0.185+ds-1 amd64,arm64,i386,ppc64el trixie 2.0.185+ds-2 amd64,ppc64el,riscv64 bullseye 2.0.179+ds-1 amd64,arm64,i386 sid 2.0.185+ds-2 amd64,loong64,ppc64el,riscv64 upstream 2.0.185-release-20221211202123 Popcon: 10 users (33 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
The package is enhanced by the following packages: multiqc Please cite: German Tischler and Steven Leonard: biobambam: tools for read pair collation based algorithms on BAM files. (eprint) Source Code Biol Med. 9:13 (2014) Registry entries: Bio.tools  SciCrunch  Bioconda		Upload screenshot

bowtie2 ??? missing short description for package bowtie2 :-( https://bowtie-bio.sourceforge.net/bowtie2 Maintainer: Debian Med Packaging Team (Steffen Moeller)	Versions of package bowtie2 Release Version Architectures forky 2.5.5-1 amd64,arm64,loong64,ppc64el,riscv64 bookworm 2.5.0-3 amd64,arm64,mips64el,ppc64el trixie 2.5.4-1 amd64,arm64,ppc64el,riscv64 sid 2.5.5-1 amd64,arm64,loong64,ppc64el,riscv64 bullseye 2.4.2-2 amd64,arm64 Popcon: 23 users (40 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
The package is enhanced by the following packages: bowtie2-examples multiqc Please cite: Ben Langmead and Steven L Salzberg: Fast gapped-read alignment with Bowtie 2. (PubMed) Nature Methods 9:357–359 (2012) Registry entries: Bio.tools  SciCrunch  Bioconda  Topics: Genomics		Upload screenshot

busco ??? missing short description for package busco :-( https://gitlab.com/ezlab/busco Maintainer: Debian Med Packaging Team (Alexandre Detiste)	Versions of package busco Release Version Architectures trixie 5.5.0-3 amd64,arm64,i386 sid 5.5.0-4 amd64,arm64,i386 forky 5.5.0-4 amd64,arm64,i386 bookworm 5.4.4-1 amd64,i386 bullseye 5.0.0-1 all upstream 6.0.0 Popcon: 10 users (34 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
The package is enhanced by the following packages: multiqc Please cite: Mathieu Seppey, Mosè Manni and Evgeny M. Zdobnov: BUSCO: Assessing Genome Assembly and Annotation Completeness. (PubMed) Methods Mol Biol. 1962:227-245 (2019) Registry entries: Bio.tools  Bioconda		Upload screenshot

bustools ??? missing short description for package bustools :-( https://bustools.github.io/ Maintainer: Debian Med Packaging Team (Andreas Tille)	Versions of package bustools Release Version Architectures sid 0.45.1+dfsg-1 amd64,arm64,loong64,ppc64el,riscv64,s390x bullseye 0.40.0-4 amd64,arm64 bookworm 0.42.0+dfsg-1 amd64,arm64,mips64el,ppc64el,s390x trixie 0.43.2+dfsg-1 amd64,arm64,ppc64el,riscv64,s390x forky 0.45.1+dfsg-1 amd64,arm64,loong64,ppc64el,riscv64,s390x Popcon: 4 users (34 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Páll Melsted, A. Sina Booeshaghi, Fan Gao, Eduardo Beltrame, Lambda Lu, Kristján Eldjárn Hjorleifsson, Jase Gehring and Lior Pachter: Modular and efficient pre-processing of single-cell RNA-seq.. BioRxiv :673285 (2019) Registry entries: Bio.tools  Bioconda		Upload screenshot

bwa ??? missing short description for package bwa :-( https://bio-bwa.sourceforge.net/ Maintainer: Debian Med Packaging Team (Michael R. Crusoe)	Versions of package bwa Release Version Architectures bullseye 0.7.17-6 amd64,arm64,armhf,i386 sid 0.7.19-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x forky 0.7.19-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x trixie 0.7.18-1 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x bookworm 0.7.17-7 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x Debtags of package bwa: biology nuceleic-acids, peptidic field biology, biology:bioinformatics interface commandline, text-mode role program use analysing, comparing Popcon: 20 users (39 upd.)* Versions and Archs Edit Debtags	License: DFSG free Official Debian package Git Translate description
Please cite: Heng Li and Richard Durbin: Fast and accurate short read alignment with Burrows-Wheeler transform. (PubMed,eprint) Bioinformatics 25(14):1754-1760 (2009) Registry entries: Bio.tools  SciCrunch  Bioconda		Upload screenshot

cat-bat ??? missing short description for package cat-bat :-( https://github.com/dutilh/CAT Maintainer: Debian Med Packaging Team (Nilesh Patra)	Versions of package cat-bat Release Version Architectures sid 6.0.1-1 amd64,arm64,loong64,ppc64el,riscv64,s390x forky 6.0.1-1 amd64,arm64,loong64,ppc64el,riscv64,s390x bullseye 5.2.2-1 amd64,arm64 bookworm 5.2.3-2 amd64,arm64,ppc64el,s390x trixie 5.3-2 amd64,arm64,ppc64el,riscv64,s390x Popcon: 4 users (34 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: F. A. Bastiaan von Meijenfeldt, Ksenia Arkhipova, Diego D. Cambuy, Felipe H. Coutinho and Bas E. Dutilh: Robust taxonomic classification of uncharted microbial sequences and bins with CAT and BAT. (PubMed,eprint) Genome Biology 20(1):217 (2019) Registry entries: Bioconda		Upload screenshot

centrifuge ??? missing short description for package centrifuge :-( https://ccb.jhu.edu/software/centrifuge/ Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package centrifuge Release Version Architectures bookworm 1.0.3-11 amd64,arm64,armel,armhf,i386,mips64el,ppc64el sid 1.0.4.2-1 amd64,arm64,loong64,ppc64el,riscv64 forky 1.0.4.2-1 amd64,arm64,loong64,ppc64el,riscv64 trixie 1.0.4.2-1 amd64,arm64,ppc64el,riscv64 bullseye 1.0.3-8 amd64,arm64,armhf,i386 Popcon: 7 users (34 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Daehwan Kim, Li Song, Florian P. Breitwieser and Steven L. Salzberg: Centrifuge: rapid and sensitive classification of metagenomic sequences. (PubMed,eprint) Genome Research 26(12):1721-1729 (2016) Registry entries: Bio.tools  Bioconda		Upload screenshot

changeo ??? missing short description for package changeo :-( https://changeo.readthedocs.io Maintainer: Debian Med Packaging Team (Alexandre Detiste)	Versions of package changeo Release Version Architectures sid 1.3.0-4 all bullseye 1.0.2-1 all bookworm 1.3.0-1 all trixie 1.3.0-3 all forky 1.3.0-4 all upstream 1.3.4 Popcon: 5 users (34 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Namita T. Gupta, Jason A. Vander Heiden, Mohamed Uduman, Daniel Gadala-Maria, Gur Yaari and Steven H. Kleinstein: Link to publication (PubMed,eprint) Bioinformatics 31(20):3356-3358 (2015) Registry entries: Bioconda		Upload screenshot

chip-seq ??? missing short description for package chip-seq :-( https://ccg.epfl.ch//chipseq Maintainer: Debian Med Packaging Team (Andreas Tille)	Versions of package chip-seq Release Version Architectures sid 1.5.5-3 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bullseye 1.5.5-3 amd64,arm64,armhf,i386 forky 1.5.5-3 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x trixie 1.5.5-3 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x bookworm 1.5.5-3 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x Popcon: 0 users (0 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Giovanna Ambrosini, René Dreos, Sunil Kumar and Philipp Bucher: The ChIP-Seq tools and web server: a resource for analyzing ChIP-seq and other types of genomic data. (PubMed,eprint) BMC Genomics 17(1):938 (2016)		Upload screenshot

clonalframeml ??? missing short description for package clonalframeml :-( https://github.com/xavierdidelot/ClonalFrameML Maintainer: Debian Med Packaging Team (Santiago Vila)	Versions of package clonalframeml Release Version Architectures bookworm 1.12-3 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x bullseye 1.12-1 amd64,arm64,armhf,i386 forky 1.13-2 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x trixie 1.13-1 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x sid 1.13-2 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x upstream 1.20 Popcon: 4 users (35 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Xavier Didelot and Daniel J. Wilson: ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes. (PubMed,eprint) PLoS Comput Biology 11(2):e1004041 (2015) Registry entries: Bioconda		Upload screenshot

cutadapt ??? missing short description for package cutadapt :-( https://cutadapt.readthedocs.io/ Maintainer: Debian Med Packaging Team (Michael R. Crusoe)	Versions of package cutadapt Release Version Architectures forky 4.7-2 all trixie 4.7-2 all sid 4.7-2 all bullseye 3.2-2 all bookworm 4.2-1 all upstream 5.2 Popcon: 11 users (38 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
The package is enhanced by the following packages: multiqc Please cite: Marcel Martin: Cutadapt removes adapter sequences from high-throughput sequencing reads. (eprint) EMBnet.journal 17(1):10-12 (2015) Registry entries: Bio.tools  SciCrunch  Bioconda		Upload screenshot

cwltool ??? missing short description for package cwltool :-( https://cwltool.readthedocs.io/ Maintainer: Debian Med Packaging Team (Michael R. Crusoe)	Versions of package cwltool Release Version Architectures forky 3.2.20260413085819-1 all sid 3.2.20260413085819-1 all bookworm 3.1.20230209161050-1 all trixie 3.1.20250110105449-3 all bullseye 3.0.20210124104916-3+deb11u1 all Popcon: 53 users (122 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Michael R. Crusoe, Sanne Abeln, Alexandru Iosup, Peter Amstutz, John Chilton, Nebojša Tijanić, Hervé Ménager, Stian Soiland-Reye, Bogdan Gavrilović, Carole Goble and The CWL Community: Methods included: standardizing computational reuse and portability with the Common Workflow Language. Communications of the ACM 65(6):54-63 (2022) Registry entries: SciCrunch  Bioconda		Upload screenshot

dcmtk ??? missing short description for package dcmtk :-( https://dicom.offis.de/dcmtk Maintainer: Debian Med Packaging Team (Alexandre Detiste)	Versions of package dcmtk Release Version Architectures trixie 3.6.9-5 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x bookworm 3.6.7-9~deb12u3 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x forky 3.7.0+really3.7.0-2 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x sid 3.7.0+really3.7.0-2 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bullseye-security 3.6.5-1+deb11u6 amd64,arm64,armhf,i386 bullseye 3.6.5-1 amd64,arm64,armhf,i386 Debtags of package dcmtk: interface commandline role program scope utility use converting, downloading works-with image, image:raster Popcon: 103 users (39 upd.)* Versions and Archs Edit Debtags	License: DFSG free Official Debian package Git Translate description
Please cite: Chung-Yueh Lien, Michael Onken, Marco Eichelberg, Tsair Kao and Andreas Hein: Open Source Tools for Standardized Privacy Protection of Medical Images. (eprint) Progress in Biomedical Optics and Imaging - Proceedings of SPIE 7967:79670M-79670M (2011)		Upload screenshot

delly ??? missing short description for package delly :-( https://github.com/dellytools/delly Maintainer: Debian Med Packaging Team (Andreas Tille)	Versions of package delly Release Version Architectures sid 1.7.2-2 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x forky 1.7.2-2 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bookworm 1.1.6-1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x bullseye 0.8.7-1 amd64,arm64,armhf,i386 trixie 1.1.8-1 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x upstream 2.0.0 Popcon: 7 users (35 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Tobias Rausch, Thomas Zichner, Andreas Schlattl, Adrian M. Stuetz, Vladimir Benes and Jan O. Korbel: DELLY: structural variant discovery by integrated paired-end and split-read analysis.. Bioinformatics 28:i333-i339 (2012) Registry entries: Bio.tools  SciCrunch  Bioconda		Upload screenshot

dextractor ??? missing short description for package dextractor :-( https://github.com/thegenemyers/DEXTRACTOR Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package dextractor Release Version Architectures bullseye 1.0-4 amd64,arm64,armhf,i386 forky 1.0-7 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x sid 1.0-7 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bookworm 1.0-6 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x trixie 1.0-6 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x Popcon: 7 users (35 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Registry entries: Bioconda		Upload screenshot

diamond-aligner ??? missing short description for package diamond-aligner :-( https://github.com/bbuchfink/diamond Maintainer: Debian Med Packaging Team (Andreas Tille)	Versions of package diamond-aligner Release Version Architectures forky 2.1.14-1 amd64,arm64,loong64,ppc64el,riscv64,s390x bookworm 2.1.3-1 amd64,arm64,ppc64el,s390x sid 2.1.14-1 amd64,arm64,loong64,ppc64el,riscv64,s390x bullseye 2.0.7-1 amd64,arm64 trixie 2.1.11-2 amd64,arm64,ppc64el,riscv64,s390x upstream 2.2.0 Popcon: 5 users (39 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Benjamin Buchfink, Chao Xie and Daniel H Huson: Fast and sensitive protein alignment using DIAMOND. (PubMed) Nature methods 12(1):59-60 (2015) Registry entries: Bio.tools  SciCrunch  Bioconda		Upload screenshot

discosnp ??? missing short description for package discosnp :-( http://colibread.inria.fr/discosnp/ Maintainer: Debian Med Packaging Team (Andreas Tille)	Versions of package discosnp Release Version Architectures sid 2.6.2-5 amd64,arm64,loong64,ppc64el,riscv64 bullseye 4.4.4-1 amd64,arm64,i386 bookworm 2.6.2-2 amd64,arm64,mips64el,ppc64el trixie 2.6.2-4 amd64,arm64,ppc64el,riscv64 forky 2.6.2-5 amd64,arm64,loong64,ppc64el,riscv64 Popcon: 7 users (35 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Registry entries: Bio.tools  SciCrunch  Bioconda		Upload screenshot

drop-seq-tools ??? missing short description for package drop-seq-tools :-( https://github.com/broadinstitute/Drop-seq/ Maintainer: Debian Med Packaging Team (Pierre Gruet)	Versions of package drop-seq-tools Release Version Architectures bookworm 2.5.2+dfsg-1 all forky 3.0.2+dfsg-2 all sid 3.0.2+dfsg-2 all trixie 3.0.2+dfsg-1 all bullseye 2.4.0+dfsg-6 all Popcon: 5 users (34 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Registry entries: Bioconda		Upload screenshot

fasta3 ??? missing short description for package fasta3 :-( https://fasta.bioch.virginia.edu Maintainer: Debian Med Packaging Team (Andreas Tille)	Versions of package fasta3 Release Version Architectures bookworm 36.3.8i.14-Nov-2020-1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x bullseye 36.3.8h.2020-02-11-3 amd64,arm64,armhf,i386 sid 36.3.8i.14-Nov-2020-4 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x forky 36.3.8i.14-Nov-2020-4 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x trixie 36.3.8i.14-Nov-2020-3 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x Popcon: 9 users (34 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: William R. Pearson and D. J. Lipman: Improved tools for biological sequence comparison. (PubMed,eprint) Proc Natl Acad Sci U S A 85(8):2444-8 (1988) Registry entries: Bioconda		Upload screenshot

fastani ??? missing short description for package fastani :-( https://github.com/ParBLiSS/FastANI Maintainer: Debian Med Packaging Team (Nilesh Patra)	Versions of package fastani Release Version Architectures sid 1.34+ds-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x forky 1.34+ds-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bookworm 1.33-2 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x trixie 1.33-3 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x Popcon: 5 users (36 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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fastp ??? missing short description for package fastp :-( https://github.com/OpenGene/fastp Maintainer: Debian Med Packaging Team (Dylan Aïssi)	Versions of package fastp Release Version Architectures forky 1.0.1+dfsg-1 amd64,arm64,loong64,ppc64el,riscv64,s390x bullseye 0.20.1+dfsg-1 amd64,arm64,armhf,i386 bookworm 0.23.2+dfsg-2 amd64,arm64,armel,armhf,mips64el,mipsel,ppc64el,s390x trixie 0.24.0+dfsg-1 amd64,arm64,ppc64el,riscv64,s390x sid 1.0.1+dfsg-1 amd64,arm64,loong64,ppc64el,riscv64,s390x upstream 1.3.3 Popcon: 9 users (34 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
The package is enhanced by the following packages: multiqc Please cite: Shifu Chen, Yanqing Zhou, Yaru Chen and Jia Gu: fastp: an ultra-fast all-in-one FASTQ preprocessor. Bioinformatics 34(17):i884-i890 (2018) Registry entries: Bioconda		Upload screenshot

fastqc ??? missing short description for package fastqc :-( https://www.bioinformatics.babraham.ac.uk/projects/fastqc/ Maintainer: Debian Med Packaging Team (Pierre Gruet)	Versions of package fastqc Release Version Architectures bookworm 0.11.9+dfsg-6 all sid 0.12.1+dfsg-4 all forky 0.12.1+dfsg-4 all trixie 0.12.1+dfsg-4 all bullseye 0.11.9+dfsg-4 all Popcon: 26 users (36 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
The package is enhanced by the following packages: multiqc Registry entries: Bio.tools  SciCrunch  Bioconda  Topics: Sequencing		Upload screenshot

filtlong ??? missing short description for package filtlong :-( https://github.com/rrwick/Filtlong Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package filtlong Release Version Architectures forky 0.3.1-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x sid 0.3.1-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bullseye 0.2.0-2 amd64,arm64,armhf,i386 bookworm 0.2.1-3 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x trixie 0.2.1-4 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x Popcon: 4 users (35 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Registry entries: Bio.tools  Bioconda		Upload screenshot

flash ??? missing short description for package flash :-( https://ccb.jhu.edu/software/FLASH/ Maintainer: Debian Med Packaging Team (Pranav Ballaney)	Versions of package flash Release Version Architectures sid 1.2.11-2 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bullseye 1.2.11-2 amd64,arm64,armhf,i386 trixie 1.2.11-2 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x forky 1.2.11-2 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bookworm 1.2.11-2 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x Popcon: 6 users (33 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
The package is enhanced by the following packages: multiqc Please cite: Tanja Magoč and Steven L Salzberg: FLASH: Fast Length Adjustment of Short Reads to Improve Genome Assemblies. (PubMed,eprint) Bioinformatics 27(21):2957-2963 (2011) Registry entries: Bio.tools  Bioconda		Upload screenshot

flye ??? missing short description for package flye :-( https://github.com/fenderglass/Flye Maintainer: Debian Med Packaging Team (Alexandre Detiste)	Versions of package flye Release Version Architectures bookworm 2.9.1+dfsg-1 amd64,arm64,mips64el,ppc64el,s390x sid 2.9.6+dfsg-2 amd64,arm64,loong64,ppc64el,riscv64,s390x forky 2.9.6+dfsg-2 amd64,arm64,loong64,ppc64el,riscv64,s390x trixie 2.9.5+dfsg-1 amd64,arm64,ppc64el,riscv64,s390x Popcon: 6 users (35 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Mikhail Kolmogorov, Jeffrey Yuan, Yu Lin and Pavel A. Pevzner: Assembly of long, error-prone reads using repeat graphs. (PubMed) Nature Biotechnology 37(5):540–546 (2019) Registry entries: Bio.tools  Bioconda		Upload screenshot

freebayes ??? missing short description for package freebayes :-( https://github.com/ekg/freebayes Maintainer: Debian Med Packaging Team (Santiago Vila)	Versions of package freebayes Release Version Architectures trixie 1.3.9-1 amd64,arm64,ppc64el,riscv64 experimental 1.3.7-1~exp amd64,arm64,armhf,i386,ppc64el,s390x bookworm 1.3.6-2 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x bullseye 1.3.5-1 amd64,arm64,armhf,i386 sid 1.3.9-2 amd64,arm64,loong64,ppc64el,riscv64 upstream 1.3.10 Popcon: 6 users (34 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Erik Garrison and Gabor Marth: Haplotype-based variant detection from short-read sequencing. (eprint) arXiv (2012) Registry entries: Bio.tools  SciCrunch  Bioconda		Upload screenshot

genometools ??? missing short description for package genometools :-( http://genometools.org Maintainer: Debian Med Packaging Team (Sascha Steinbiss)	Versions of package genometools Release Version Architectures bullseye 1.6.1+ds-3 amd64,arm64,armhf,i386 forky 1.6.6+ds-2 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x sid 1.6.6+ds-2 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x trixie 1.6.5+ds-2.2 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x bookworm-backports 1.6.5+ds-2~bpo12+1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x bookworm 1.6.2+ds-3 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x Debtags of package genometools: biology nuceleic-acids field biology, biology:bioinformatics interface commandline role program uitoolkit ncurses Popcon: 7 users (36 upd.)* Versions and Archs Edit Debtags	License: DFSG free Official Debian package Git Translate description
Please cite: Gordon Gremme, Sascha Steinbiss and Stefan Kurtz: GenomeTools: a comprehensive software library for efficient processing of structured genome annotations.. (PubMed) IEEE/ACM Transactions on Computational Biology and Bioinformatics 10(3):645-656 (2013) Registry entries: Bio.tools		Upload screenshot

gffread ??? missing short description for package gffread :-( https://ccb.jhu.edu/software/stringtie/gff.shtml Maintainer: Debian Med Packaging Team (Michael R. Crusoe)	Versions of package gffread Release Version Architectures trixie 0.12.7-8 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x forky 0.12.7-8 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x sid 0.12.7-8 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bullseye 0.12.1-4 amd64,arm64,armhf,i386 bookworm 0.12.7-3 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x upstream 0.12.9 Popcon: 7 users (36 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Registry entries: Bio.tools  Bioconda		Upload screenshot

ginkgocadx ??? missing short description for package ginkgocadx :-( http://ginkgo-cadx.com/ Maintainer: Debian Med Packaging Team (Gianfranco Costamagna)	Versions of package ginkgocadx Release Version Architectures bullseye 3.8.8-5 amd64,i386 Debtags of package ginkgocadx: field medicine, medicine:imaging role program uitoolkit gtk, wxwidgets use viewing Popcon: 9 users (1 upd.)* Versions and Archs Edit Debtags	License: DFSG free Official Debian package Git Translate description
		Other screenshots of package ginkgocadx Version URL 3.8.7-1 https://screenshots.debian.net/screenshot/ginkgocadx/16470

gnumed-client ??? missing short description for package gnumed-client :-( https://www.gnumed.de Maintainer: Debian Med Packaging Team (Alexandre Detiste)	Versions of package gnumed-client Release Version Architectures sid 1.8.24+dfsg-3 all forky 1.8.24+dfsg-3 all trixie 1.8.21+dfsg-1 all bookworm 1.8.9+dfsg-1 all bullseye 1.8.5+dfsg-2 all Debtags of package gnumed-client: field medicine interface x11 network client role program scope application uitoolkit wxwidgets use organizing works-with db, people x11 application Popcon: 4 users (2 upd.)* Versions and Archs Edit Debtags	License: DFSG free Official Debian package Git Translate description
The package is enhanced by the following packages: entangle gnumed-doc

gnumed-server ??? missing short description for package gnumed-server :-( https://www.gnumed.de Maintainer: Debian Med Packaging Team (Alexandre Detiste)	Versions of package gnumed-server Release Version Architectures bullseye 22.15-1 all sid 22.34-2 all forky 22.34-2 all bookworm 22.19-1 all trixie 22.31-1 all Debtags of package gnumed-server: field medicine role program Popcon: 13 users (0 upd.)* Versions and Archs Edit Debtags	License: DFSG free Official Debian package Git Translate description
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gromacs ??? missing short description for package gromacs :-( https://www.gromacs.org/ Maintainer: Debichem Team (Santiago Vila)	Versions of package gromacs Release Version Architectures forky 2026.2-2 amd64,arm64,loong64,ppc64el,riscv64,s390x trixie 2025.2-1 amd64,arm64,ppc64el,riscv64,s390x sid 2026.2-2 amd64,arm64,loong64,ppc64el,riscv64,s390x bullseye 2020.6-2 amd64,arm64,armhf,i386 bookworm 2022.5-2 amd64,arm64,mips64el,ppc64el,s390x Debtags of package gromacs: field biology, biology:structural, chemistry interface commandline, x11 role program uitoolkit xlib x11 application Popcon: 19 users (59 upd.)* Versions and Archs Edit Debtags	License: DFSG free Official Debian package Git Translate description
Please cite: Berk Hess, Carsten Kutzner, David van der Spoel and Erik Lindahl: GROMACS 4: Algorithms for Highly Efficient, Load-Balanced, and Scalable Molecular Simulation. (eprint) J. Chem. Theory Comput. 4(3):435-447 (2008) Registry entries: Bio.tools  SciCrunch  Bioconda		Upload screenshot

gubbins ??? missing short description for package gubbins :-( https://nickjcroucher.github.io/gubbins/ Maintainer: Debian Med Packaging Team (Michael R. Crusoe)	Versions of package gubbins Release Version Architectures bullseye 2.4.1-4 amd64,i386 trixie 3.4-2 amd64,i386 forky 3.4.3-4 amd64,i386 bookworm 2.4.1-5 amd64,i386 sid 3.4.3-4 amd64,i386 Popcon: 10 users (37 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Nicholas J. Croucher, Andrew J. Page, Thomas R. Connor, Aidan J. Delaney, Jacqueline A. Keane, Stephen D. Bentley, Julian Parkhill and Simon R. Harris: Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins. (PubMed,eprint) Nucleic Acids Research 43(3):e15 (2014) Registry entries: Bioconda		Upload screenshot

imagej ??? missing short description for package imagej :-( https://imagej.nih.gov/ij Maintainer: Debian Med Packaging Team (Andreas Tille)	Versions of package imagej Release Version Architectures bullseye 1.53g-2 all sid 1.54g-1 all trixie 1.54g-1 all forky 1.54g-1 all bookworm 1.53t-1 all Debtags of package imagej: role program use analysing, editing, viewing works-with image, image:raster works-with-format gif, jpg, tiff Popcon: 78 users (52 upd.)* Versions and Archs Edit Debtags	License: DFSG free Official Debian package Git Translate description
Please cite: Caroline A Schneider, Wayne S Rasband and Kevin W Eliceiri: NIH Image to ImageJ: 25 years of image analysis. (PubMed,eprint) Nature methods 9:671-675 (2012) Registry entries: SciCrunch

ivar ??? missing short description for package ivar :-( https://github.com/andersen-lab/ivar Maintainer: Debian Med Packaging Team (Santiago Vila)	Versions of package ivar Release Version Architectures sid 1.4.4+dfsg-2 amd64,arm64,i386,loong64,riscv64 forky 1.4.4+dfsg-2 amd64,arm64,i386,loong64,riscv64 trixie 1.4.4+dfsg-1 amd64,arm64,i386,riscv64 bullseye 1.3+dfsg-1 amd64,arm64,i386 bookworm 1.3.1+dfsg-7 amd64,arm64,i386,mips64el,mipsel Popcon: 0 users (1 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
The package is enhanced by the following packages: multiqc Please cite: Nathan D. Grubaugh, Karthik Gangavarapu, Joshua Quick, Nathaniel L. Matteson, Jaqueline Goes De Jesus, Bradley J. Main, Amanda L. Tan, Lauren M. Paul, Doug E. Brackney, Saran Grewal, Nikos Gurfield, Koen K. A. Van Rompay, Sharon Isern, Scott F. Michael, Lark L. Coffey, Nicholas J. Loman and Kristian G. Andersen: An amplicon-based sequencing framework for accurately measuring intrahost virus diversity using PrimalSeq and iVar. (PubMed,eprint) Genome Biology 20(1):8 (2019) Registry entries: Bioconda		Upload screenshot

kalign ??? missing short description for package kalign :-( https://msa.sbc.su.se/ Maintainer: Debian Med Packaging Team (Charles Plessy)	Versions of package kalign Release Version Architectures bookworm 3.3.5-1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x forky 3.5.1-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x sid 3.5.1-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x trixie 3.4.0-1 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x bullseye 3.3-1 amd64,arm64,armhf,i386 upstream 3.6.0 Debtags of package kalign: biology format:aln, nuceleic-acids, peptidic field biology, biology:bioinformatics interface commandline role program scope utility use comparing works-with-format plaintext Popcon: 16 users (45 upd.)* Newer upstream! Edit Debtags	License: DFSG free Official Debian package Git Translate description
Please cite: Lassmann, Timo.: Kalign 3: multiple sequence alignment of large datasets. (eprint) Bioinformatics 36(6):1928-1929 (2020) Registry entries: Bio.tools  SciCrunch		Upload screenshot

kallisto ??? missing short description for package kallisto :-( https://pachterlab.github.io/kallisto Maintainer: Debian Med Packaging Team (Andreas Tille)	Versions of package kallisto Release Version Architectures bullseye 0.46.2+dfsg-2 amd64,arm64,armhf,i386 bookworm 0.48.0+dfsg-3 amd64,arm64,mips64el,ppc64el,s390x trixie 0.48.0+dfsg-4 amd64,arm64,ppc64el,riscv64,s390x sid 0.51.1+dfsg-2 amd64,arm64,loong64,ppc64el,riscv64,s390x upstream 0.52.0 Popcon: 5 users (35 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
The package is enhanced by the following packages: multiqc Please cite: Nicolas L Bray, Harold Pimentel, Páll Melsted and Lior Pachter: Near-optimal probabilistic RNA-seq quantification. (PubMed) Nature Biotechnology 34(5):525–527 (2016) Registry entries: Bio.tools  Bioconda		Upload screenshot

kraken2 ??? missing short description for package kraken2 :-( https://www.ccb.jhu.edu/software/kraken2/ Maintainer: Debian Med Packaging Team (Andreas Tille)	Versions of package kraken2 Release Version Architectures bullseye 2.1.1-1 amd64,arm64,armhf,i386 forky 2.1.3-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x trixie 2.1.3-1 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x sid 2.1.3-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bookworm 2.1.2-2 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x upstream 2.17.1 Popcon: 8 users (34 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Derrick E Wood and Steven L Salzberg: Kraken: ultrafast metagenomic sequence classification using exact alignments. (PubMed,eprint) Genome Biol. 15(3):R46 (2014) Registry entries: Bio.tools  Bioconda		Upload screenshot

lastz ??? missing short description for package lastz :-( https://github.com/lastz/lastz Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package lastz Release Version Architectures sid 1.04.52-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x forky 1.04.52-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x trixie 1.04.22-2 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x bookworm 1.04.22-2 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x bullseye 1.04.03-4 amd64,arm64,armhf,i386 Popcon: 5 users (33 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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libbbhash-dev ??? missing short description for package libbbhash-dev :-( https://github.com/rizkg/BBHash Maintainer: Debian Med Packaging Team (Santiago Vila)	Versions of package libbbhash-dev Release Version Architectures forky 1.0.0-7 amd64,arm64,loong64,ppc64el,riscv64,s390x bullseye 1.0.0-3 amd64,arm64 bookworm 1.0.0-5 amd64,arm64,mips64el,ppc64el,s390x trixie 1.0.0-6 amd64,arm64,ppc64el,riscv64,s390x sid 1.0.0-7 amd64,arm64,loong64,ppc64el,riscv64,s390x Popcon: 0 users (0 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Antoine Limasset, Guillaume Rizk, Rayan Chikhi and Pierre Peterlongo: Fast and scalable minimal perfect hashing for massive key sets. HAL-Inria (2017)		Upload screenshot

libchipcard-dev ??? missing short description for package libchipcard-dev :-( https://www.aquamaniac.de/rdm/projects/libchipcard Maintainer: Micha Lenk	Versions of package libchipcard-dev Release Version Architectures experimental 5.99.1beta-2 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bookworm 5.1.6-1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x trixie 5.1.6-2 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x forky 5.1.6-2 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bullseye 5.1.5rc2-7 amd64,arm64,armhf,i386 sid 5.1.6-2 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x upstream 5.99.1beta Debtags of package libchipcard-dev: devel lang:c, library role devel-lib Popcon: 0 users (1 upd.)* Newer upstream! Edit Debtags	License: DFSG free Official Debian package Git Translate description
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libgclib-dev ??? missing short description for package libgclib-dev :-( https://github.com/gpertea/gclib Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package libgclib-dev Release Version Architectures bookworm 0.12.7+ds-5 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x bullseye 0.11.10+ds-2 amd64,arm64,armhf,i386 trixie 0.12.7+ds-6 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x forky 0.12.8+ds-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x sid 0.12.8+ds-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x Popcon: 1 users (37 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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libgdcm-tools ??? missing short description for package libgdcm-tools :-( http://gdcm.sourceforge.net/ Maintainer: Debian Med Packaging Team (Jeremy Bícha)	Versions of package libgdcm-tools Release Version Architectures sid 3.0.24-10 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x forky 3.0.24-10 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x trixie 3.0.24-5 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x bullseye 3.0.8-2 amd64,arm64,armhf,i386 bookworm 3.0.21-1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x upstream 3.2.6 Debtags of package libgdcm-tools: field medicine:imaging interface commandline role program scope utility use converting works-with image, image:raster Popcon: 24 users (28 upd.)* Newer upstream! Edit Debtags	License: DFSG free Official Debian package Git Translate description
Please cite: David Rodríguez González, Trevor Carpenter, Jano I. van Hemert and Joanna Wardlaw: An open source toolkit for medical imaging de-identification. (PubMed,eprint) European Radiology 20(8):1896-1904 (2010)		Upload screenshot

libhtscodecs-dev ??? missing short description for package libhtscodecs-dev :-( https://github.com/jkbonfield/htscodecs/ Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package libhtscodecs-dev Release Version Architectures sid 1.6.6-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x forky 1.6.6-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x trixie 1.6.1-2 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x bookworm 1.3.0-4 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x bullseye 0.5-3 amd64,arm64,armhf,i386 Popcon: 6 users (35 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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libics-dev ??? missing short description for package libics-dev :-( https://svi-opensource.github.io/libics/ Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package libics-dev Release Version Architectures sid 1.7.0-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x trixie 1.6.8-1 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x forky 1.7.0-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bookworm 1.6.6-1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x bullseye 1.6.4-1 amd64,arm64,armhf,i386 Debtags of package libics-dev: devel library role devel-lib Popcon: 0 users (2 upd.)* Versions and Archs Edit Debtags	License: DFSG free Official Debian package Git Translate description
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libmaus2-dev ??? missing short description for package libmaus2-dev :-( https://gitlab.com/german.tischler/libmaus2 Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package libmaus2-dev Release Version Architectures trixie 2.0.813+ds-4 amd64,ppc64el,riscv64 sid 2.0.813+ds-5 amd64,loong64,ppc64el,riscv64 forky 2.0.813+ds-5 amd64,loong64,ppc64el,riscv64 bookworm 2.0.813+ds-1 amd64,arm64,i386,ppc64el bullseye 2.0.768+dfsg-2 amd64,arm64,i386 Popcon: 0 users (0 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Registry entries: Bio.tools  Bioconda		Upload screenshot

libmilib-java ??? missing short description for package libmilib-java :-( https://milaboratory.com/ Maintainer: Debian Med Packaging Team (Pierre Gruet)	Versions of package libmilib-java Release Version Architectures trixie 2.2.0+dfsg-1 all bullseye 1.13-1 all forky 2.2.0+dfsg-1 all sid 2.2.0+dfsg-1 all bookworm 2.2.0+dfsg-1 all Popcon: 0 users (0 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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libseqan3-dev ??? missing short description for package libseqan3-dev :-( https://www.seqan.de/ Maintainer: Debian Med Packaging Team (Alexandre Detiste)	Versions of package libseqan3-dev Release Version Architectures bullseye 3.0.2+ds-9 all bookworm 3.2.0+ds-6+deb12u1 all trixie 3.4.0~rc.3+ds-4 all forky 3.4.0+ds-2 all sid 3.4.0+ds-2 all upstream 3.4.2 Popcon: 1 users (36 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Andreas Doring, David Weese, Tobias Rausch and Knut Reinert: SeqAn An efficient, generic C++ library for sequence analysis. (PubMed,eprint) BMC Bioinformatics 9(1):11 (2008) Registry entries: Bio.tools  Bioconda		Upload screenshot

lighter ??? missing short description for package lighter :-( https://github.com/mourisl/Lighter Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package lighter Release Version Architectures trixie 1.1.3-1 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x bookworm 1.1.2-7 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x forky 1.1.3-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x sid 1.1.3-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bullseye 1.1.2-5 amd64,arm64,armhf,i386 Popcon: 5 users (34 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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lumpy-sv ??? missing short description for package lumpy-sv :-( https://github.com/arq5x/lumpy-sv Maintainer: Debian Med Packaging Team (Sudip Mukherjee)	Versions of package lumpy-sv Release Version Architectures trixie 0.3.1+dfsg-7 amd64,arm64,armel,armhf,i386,ppc64el,riscv64 bookworm 0.3.1+dfsg-7 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el bullseye 0.3.1+dfsg-5 amd64,arm64,armhf,i386 sid 0.3.1+dfsg-8.1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64 forky 0.3.1+dfsg-8.1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64 Popcon: 5 users (35 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
The package is enhanced by the following packages: lumpy-sv-examples		Upload screenshot

mecat2 ??? missing short description for package mecat2 :-( https://github.com/xiaochuanle/MECAT2 Maintainer: Debian Med Packaging Team (Andreas Tille)	Versions of package mecat2 Release Version Architectures bullseye 0.0+git20200428.f54c542+ds-3 amd64 forky 0.0+git20200428.f54c542+ds-4 amd64 sid 0.0+git20200428.f54c542+ds-4 amd64 bookworm 0.0+git20200428.f54c542+ds-3 amd64 trixie 0.0+git20200428.f54c542+ds-4 amd64 Popcon: 4 users (34 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Chuan-Le Xiao, Ying Chen, Shang-Qian Xie, Kai-Ning Chen, Yan Wang, Yue Han, Feng Luo and Zhi Xie: MECAT: fast mapping, error correction, and de novo assembly for single-molecule sequencing reads. Nature Methods 14(11):1078 (2017)		Upload screenshot

megahit ??? missing short description for package megahit :-( https://github.com/voutcn/megahit Maintainer: Debian Med Packaging Team (Pierre Gruet)	Versions of package megahit Release Version Architectures bookworm 1.2.9-4 amd64 sid 1.2.9+dfsg-1 amd64 forky 1.2.9+dfsg-1 amd64 trixie 1.2.9-5 amd64 bullseye 1.2.9-2 amd64 Popcon: 5 users (35 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Dinghua Li, Chi-Man Liu, Ruibang Luo, Kunihiko Sadakane and Tak-Wah Lam: MEGAHIT: an ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph. (PubMed) 31:1674-1676 (2015) Registry entries: Bio.tools  Bioconda		Upload screenshot

metabat ??? missing short description for package metabat :-( https://bitbucket.org/berkeleylab/metabat/wiki/Home Maintainer: Debian Med Packaging Team (Andreas Tille)	Versions of package metabat Release Version Architectures bookworm 2.15-4 amd64,i386 sid 2.15-4 i386 trixie 2.15-4 amd64,i386 sid 2.18-4 amd64 bullseye 2.15-3 amd64,i386 Popcon: 7 users (34 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Dongwan D. Kang, Jeff Froula, Rob Egan and Zhong Wang: MetaBAT, an efficient tool for accurately reconstructing single genomes from complex microbial communities. (PubMed) PeerJ 3:e1165 (2015) Registry entries: Bioconda		Upload screenshot

minia ??? missing short description for package minia :-( http://minia.genouest.org/ Maintainer: Debian Med Packaging Team (Andreas Tille)	Versions of package minia Release Version Architectures trixie 3.2.6-4 amd64,arm64,ppc64el,riscv64 bullseye 3.2.1+git20200522.4960a99-1 amd64,arm64,i386 bookworm 3.2.6-3 amd64,arm64,mips64el,ppc64el forky 3.2.6-5 amd64,arm64,loong64,ppc64el,riscv64 sid 3.2.6-5 amd64,arm64,loong64,ppc64el,riscv64 Popcon: 7 users (35 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Rayan Chikhi and Guillaume Rizk: Space-Efficient and Exact de Bruijn Graph Representation Based on a Bloom Filter.. (PubMed,eprint) Algorithms for Molecular Biology 8(1):22 (2013) Registry entries: Bio.tools  SciCrunch  Bioconda  Topics: Sequence assembly		Upload screenshot

minimap2 ??? missing short description for package minimap2 :-( https://github.com/lh3/minimap2 Maintainer: Debian Med Packaging Team (Michael R. Crusoe)	Versions of package minimap2 Release Version Architectures forky 2.27+dfsg-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x trixie 2.27+dfsg-1 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x bookworm 2.24+dfsg-3 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x sid 2.27+dfsg-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bullseye 2.17+dfsg-12 amd64,arm64,armhf,i386 upstream 2.31 Popcon: 9 users (38 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Heng Li: Minimap2: pairwise alignment for nucleotide sequences. (PubMed,eprint) Bioinformatics :2103-2110 (2018) Registry entries: Bioconda		Upload screenshot

mmb ??? missing short description for package mmb :-( https://simtk.org/projects/rnatoolbox Maintainer: Debichem Team (Andrius Merkys)	Versions of package mmb Release Version Architectures forky 4.2+dfsg-2 amd64,arm64,loong64,ppc64el,riscv64,s390x experimental 4.0.0+dfsg-3.1~exp1 amd64,arm64,armhf trixie 4.0.0+dfsg-5 amd64,arm64,ppc64el,riscv64,s390x sid 4.2+dfsg-2 amd64,arm64,loong64,ppc64el,riscv64,s390x bullseye 3.2+dfsg-2+deb11u1 amd64,arm64 bookworm 4.0.0+dfsg-2 amd64,arm64 Popcon: 10 users (36 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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mmseqs2 ??? missing short description for package mmseqs2 :-( https://github.com/soedinglab/MMseqs2 Maintainer: Debian Med Packaging Team (Andreas Tille)	Versions of package mmseqs2 Release Version Architectures trixie 15-6f452+ds-2 amd64,arm64,ppc64el,riscv64 bullseye 12-113e3+ds-3 amd64,arm64,armhf,i386 bookworm 14-7e284+ds-1 amd64,arm64,mips64el,ppc64el forky 18-8cc5c+ds-1 amd64,arm64,loong64,ppc64el,riscv64 sid 18-8cc5c+ds-1 amd64,arm64,loong64,ppc64el,riscv64 Popcon: 9 users (35 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Martin Steinegger and Johannes Söding: Clustering huge protein sequence sets in linear time. Nature Communications 9(1) (2018) Registry entries: Bio.tools  Bioconda		Upload screenshot

multiqc ??? missing short description for package multiqc :-( https://multiqc.info/ Maintainer: Debian Med Packaging Team (Alexandre Detiste)	Versions of package multiqc Release Version Architectures forky 1.21+dfsg-4 all trixie 1.21+dfsg-2 all bullseye 1.9+dfsg-3 all bookworm 1.14+dfsg-1 all sid 1.21+dfsg-4 all upstream 1.35 Popcon: 128 users (33 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller: MultiQC: summarize analysis results for multiple tools and samples in a single report. (PubMed,eprint) Bioinformatics 31(19):3047-8 (2016) Registry entries: Bio.tools  SciCrunch  Bioconda		Upload screenshot

muscle ??? missing short description for package muscle :-( https://www.drive5.com/muscle/ Maintainer: Debian Med Packaging Team (Lance Lin)	Versions of package muscle Release Version Architectures bookworm 5.1.0-1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x sid 5.1.0-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bullseye 3.8.1551-2 amd64,arm64,armhf,i386 forky 5.1.0-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x trixie 5.1.0-1 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x upstream 5.3 Debtags of package muscle: biology format:aln, nuceleic-acids, peptidic field biology, biology:bioinformatics interface commandline role program scope utility use comparing works-with-format plaintext Popcon: 22 users (40 upd.)* Newer upstream! Edit Debtags	License: DFSG free Official Debian package Git Translate description
Please cite: Robert C. Edgar: MUSCLE: multiple sequence alignment with high accuracy and high throughput. (PubMed,eprint) Nucleic Acids Research 32(5):1792-1797 (2004) Registry entries: Bio.tools  SciCrunch  Bioconda  Topics: Sequence analysis

muscle3 ??? missing short description for package muscle3 :-( https://www.drive5.com/muscle/ Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package muscle3 Release Version Architectures trixie 3.8.1551-3 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x forky 3.8.1551-3 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bookworm 3.8.1551-2 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x sid 3.8.1551-3 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x Popcon: 0 users (1 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Robert C. Edgar: MUSCLE: multiple sequence alignment with high accuracy and high throughput. (PubMed,eprint) Nucleic Acids Research 32(5):1792-1797 (2004) Registry entries: Bio.tools  SciCrunch  Bioconda  Topics: Sequence analysis		Upload screenshot

nanofilt ??? missing short description for package nanofilt :-( https://github.com/wdecoster/nanofilt Maintainer: Debian Med Packaging Team (Nilesh Patra)	Versions of package nanofilt Release Version Architectures sid 2.8.0-1 all trixie 2.8.0-1 all bookworm 2.8.0-1 all bullseye 2.6.0-3 all forky 2.8.0-1 all Popcon: 7 users (32 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Wouter De Coster, Svenn D'Hert, Darrin T. Schultz and Christine Van Broeckhoven: NanoPack: visualizing and processing long-read sequencing data. Bioinformatics 34 (2018) Registry entries: Bioconda		Upload screenshot

nanolyse ??? missing short description for package nanolyse :-( https://github.com/wdecoster/nanolyse Maintainer: Debian Med Packaging Team (Andreas Tille)	Versions of package nanolyse Release Version Architectures bookworm 1.2.0-4 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x bullseye 1.2.0-1 amd64,arm64,armhf,i386 sid 1.2.0-4 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x forky 1.2.0-4 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x trixie 1.2.0-4 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x Popcon: 6 users (32 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Wouter De Coster, Svenn D’Hert, Darrin T Schultz, Marc Cruts and Christine Van Broeckhoven: NanoPack: visualizing and processing long-read sequencing data. (PubMed,eprint) Bioinformatics 34(15):2666-2669 (2018) Registry entries: Bioconda		Upload screenshot

nanook ??? missing short description for package nanook :-( https://documentation.tgac.ac.uk/display/NANOOK/NanoOK Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package nanook Release Version Architectures bookworm 1.33+dfsg-5 all sid 1.33+dfsg-6 all bullseye 1.33+dfsg-2.1 all Popcon: 0 users (0 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
The package is enhanced by the following packages: nanook-examples Please cite: Richard M. Leggett, Darren Heavens, Mario Caccamo, Matthew D. Clark and Robert P. Davey: NanoOK: multi-reference alignment analysis of nanopore sequencing data, quality and error profiles. (PubMed,eprint) Bioinformatics 32(1):142-144 (2016) Registry entries: Bio.tools		Upload screenshot

nanopolish ??? missing short description for package nanopolish :-( https://github.com/jts/nanopolish Maintainer: Debian Med Packaging Team (Nilesh Patra)	Versions of package nanopolish Release Version Architectures sid 0.14.0-2 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64 bullseye 0.13.2-3 amd64,arm64,armhf,i386 forky 0.14.0-2 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64 trixie 0.14.0-1 amd64,arm64,armel,armhf,i386,ppc64el,riscv64 bookworm 0.14.0-1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el Popcon: 10 users (35 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Registry entries: Bio.tools  SciCrunch  Bioconda		Upload screenshot

nanosv ??? missing short description for package nanosv :-( https://github.com/mroosmalen/nanosv Maintainer: Debian Med Packaging Team (Ananthu C V)	Versions of package nanosv Release Version Architectures trixie 1.2.4+git20190409.c1ae30c-7 all bookworm 1.2.4+git20190409.c1ae30c-6 all bullseye 1.2.4+git20190409.c1ae30c-3 all sid 1.2.4+git20190409.c1ae30c-7 all forky 1.2.4+git20190409.c1ae30c-7 all Popcon: 6 users (33 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Mircea Cretu Stancu, Markus J. van Roosmalen, Ivo Renkens, Marleen M. Nieboer, Sjors Middelkamp, Joep de Ligt, Giulia Pregno, Daniela Giachino, Giorgia Mandrile, Jose Espejo Valle-Inclan, Jerome Korzelius, Ewart de Bruijn, Edwin Cuppen, Michael E. Talkowski, Tobias Marschall, Jeroen de Ridder and Wigard P. Kloosterman: Mapping and phasing of structural variation in patient genomes using nanopore sequencing.. (eprint) Nature Communications 8:1326 (2017) Registry entries: Bioconda		Upload screenshot

ncbi-blast+ ??? missing short description for package ncbi-blast+ :-( https://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/ Maintainer: Debian Med Packaging Team (Aaron M. Ucko)	Versions of package ncbi-blast+ Release Version Architectures bullseye 2.11.0+ds-1 amd64,arm64,armhf,i386 forky 2.17.0+ds-7 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x sid 2.17.0+ds-7 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bookworm 2.12.0+ds-3 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x trixie 2.16.0+ds-7 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x Debtags of package ncbi-blast+: field biology, biology:bioinformatics interface commandline role program use analysing works-with biological-sequence Popcon: 78 users (126 upd.)* Versions and Archs Edit Debtags	License: DFSG free Official Debian package Git Translate description
Registry entries: Bio.tools  SciCrunch  Bioconda		Upload screenshot

ngmlr ??? missing short description for package ngmlr :-( https://github.com/philres/ngmlr Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package ngmlr Release Version Architectures sid 0.2.7+git20210816.a2a31fb+dfsg-4 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bullseye 0.2.7+dfsg-4 amd64,arm64,armhf,i386 bookworm 0.2.7+git20210816.a2a31fb+dfsg-2 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x trixie 0.2.7+git20210816.a2a31fb+dfsg-2 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x forky 0.2.7+git20210816.a2a31fb+dfsg-4 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x Popcon: 5 users (33 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Fritz J. Sedlazeck, Philipp Rescheneder, Moritz Smolka, Han Fang, Maria Nattestad, Arndt von Haeseler and Michael C. Schatz: Accurate detection of complex structural variations using single-molecule sequencing. Nature Methods 15:461–468 (2018) Registry entries: Bio.tools  SciCrunch  Bioconda		Upload screenshot

nthash ??? missing short description for package nthash :-( https://github.com/bcgsc/ntHash Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package nthash Release Version Architectures bookworm 2.3.0+dfsg-1 amd64,arm64,mips64el,ppc64el forky 2.3.0+dfsg-5 amd64,arm64,loong64,ppc64el,riscv64,s390x trixie 2.3.0+dfsg-4 amd64,arm64,ppc64el,riscv64,s390x sid 2.3.0+dfsg-5 amd64,arm64,loong64,ppc64el,riscv64,s390x Popcon: 0 users (0 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Hamid Mohamadi, Justin Chu, Benjamin P. Vandervalk and Inanc Birol: ntHash: recursive nucleotide hashing. (PubMed,eprint) Bioinformatics 32(22):3492-3494 (2016)		Upload screenshot

odil ??? missing short description for package odil :-( https://github.com/lamyj/odil Maintainer: Debian Med Packaging Team (Anton Gladky)	Versions of package odil Release Version Architectures trixie 0.12.2-5 all bookworm 0.12.2-2 all bullseye 0.12.1-1 all forky 0.13.0-3 all sid 0.13.0-3 all Popcon: 9 users (9 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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orthanc ??? missing short description for package orthanc :-( https://www.orthanc-server.com/ Maintainer: Debian Med Packaging Team (Sebastien Jodogne)	Versions of package orthanc Release Version Architectures bookworm-security 1.10.1+dfsg-2+deb12u1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x bullseye-security 1.9.2+really1.9.1+dfsg-1+deb11u2 amd64,arm64,armhf,i386 trixie 1.12.7+dfsg-4 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x forky 1.12.11+dfsg-7 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bullseye 1.9.2+really1.9.1+dfsg-1+deb11u1 amd64,arm64,armhf,i386 bookworm 1.10.1+dfsg-2+deb12u1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x sid 1.12.11+dfsg-7 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x Popcon: 136 users (1 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Sébastien Jodogne: The Orthanc Ecosystem for Medical Imaging. (PubMed,eprint) Journal of Digital Imaging 31(3):341–352 (2018)		Other screenshots of package orthanc Version URL 1.9.7+dfsg https://screenshots.debian.net/screenshot/orthanc/26300 1.9.7+dfsg https://screenshots.debian.net/screenshot/orthanc/26105 1.9.7+dfsg https://screenshots.debian.net/screenshot/orthanc/23986 1.9.7+dfsg https://screenshots.debian.net/screenshot/orthanc/25361 1.9.7+dfsg https://screenshots.debian.net/screenshot/orthanc/26107 1.9.7+dfsg https://screenshots.debian.net/screenshot/orthanc/26106 1.9.7+dfsg https://screenshots.debian.net/screenshot/orthanc/24778 1.9.7+dfsg https://screenshots.debian.net/screenshot/orthanc/25105 1.9.7+dfsg https://screenshots.debian.net/screenshot/orthanc/24271 1.9.7+dfsg https://screenshots.debian.net/screenshot/orthanc/25360 1.9.7+dfsg https://screenshots.debian.net/screenshot/orthanc/24270 1.9.7+dfsg https://screenshots.debian.net/screenshot/orthanc/23295 1.9.7+dfsg https://screenshots.debian.net/screenshot/orthanc/25359 1.9.7+dfsg https://screenshots.debian.net/screenshot/orthanc/24708 https://screenshots.debian.net/screenshot/orthanc/10544 1.9.7+dfsg https://screenshots.debian.net/screenshot/orthanc/24707 1.9.7+dfsg https://screenshots.debian.net/screenshot/orthanc/24799 1.9.7+dfsg https://screenshots.debian.net/screenshot/orthanc/25362 1.9.7+dfsg https://screenshots.debian.net/screenshot/orthanc/25317

orthanc-dicomweb ??? missing short description for package orthanc-dicomweb :-( https://orthanc.uclouvain.be/book/plugins/dicomweb.html Maintainer: Debian Med Packaging Team (Sebastien Jodogne)	Versions of package orthanc-dicomweb Release Version Architectures bookworm 1.7+dfsg-6 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x trixie 1.20+dfsg-1 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x bullseye 1.5+dfsg-3 amd64,arm64,armhf,i386 forky 1.23+dfsg-2 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x sid 1.23+dfsg-2 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x Popcon: 19 users (1 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Sebastien Jodogne: The Orthanc Ecosystem for Medical Imaging. J Digit Imaging (2018)		Other screenshots of package orthanc-dicomweb Version URL 1.7+dfsg https://screenshots.debian.net/screenshot/orthanc-dicomweb/24024

orthanc-python ??? missing short description for package orthanc-python :-( https://orthanc.uclouvain.be/book/plugins/python.html Maintainer: Debian Med Packaging Team (Sebastien Jodogne)	Versions of package orthanc-python Release Version Architectures bullseye 3.1+ds-1 amd64,arm64,armhf,i386 trixie 5.0+ds-3 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x sid 7.1+ds-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x forky 7.1+ds-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bookworm 4.0+ds-1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x Popcon: 10 users (0 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Sebastien Jodogne: The Orthanc Ecosystem for Medical Imaging. J Digit Imaging (2018)		Upload screenshot

orthanc-wsi ??? missing short description for package orthanc-wsi :-( https://orthanc.uclouvain.be/book/plugins/wsi.html Maintainer: Debian Med Packaging Team (Sebastien Jodogne)	Versions of package orthanc-wsi Release Version Architectures trixie 3.2+dfsg-7 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x sid 3.3+dfsg-6 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x forky 3.3+dfsg-6 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bullseye 1.0-3 amd64,arm64,armhf,i386 bookworm 1.1-4 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x Popcon: 66 users (3 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Sebastien Jodogne: The Orthanc Ecosystem for Medical Imaging. J Digit Imaging (2018)		Upload screenshot

paleomix ??? missing short description for package paleomix :-( https://geogenetics.ku.dk/publications/paleomix Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package paleomix Release Version Architectures trixie 1.3.8-2 amd64,arm64 sid 1.3.10-1 amd64,arm64 bullseye 1.3.2-1 amd64,arm64 bookworm 1.3.7-3 amd64,arm64 upstream 1.4.0 Popcon: 5 users (32 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Mikkel Schubert, Luca Ermini, Clio Der Sarkissian, Hákon Jónsson, Aurélien Ginolhac, Robert Schaefer, Michael D Martin, Ruth Fernández, Martin Kircher, Molly McCue, Eske Willerslev and Ludovic Orlando: Characterization of ancient and modern genomes by SNP detection and phylogenomic and metagenomic analysis using PALEOMIX. (PubMed) Nature Protocols 9(5):1056-82 (2014) Registry entries: Bio.tools  SciCrunch		Upload screenshot

parallel-fastq-dump ??? missing short description for package parallel-fastq-dump :-( https://github.com/rvalieris/parallel-fastq-dump Maintainer: Debian Med Packaging Team (Mohammed Bilal)	Versions of package parallel-fastq-dump Release Version Architectures trixie 0.6.7-3 amd64,arm64 bullseye 0.6.6-3 amd64 bookworm 0.6.7-3 amd64,arm64 forky 0.6.7-3 amd64,arm64 sid 0.6.7-3 amd64,arm64 Popcon: 0 users (0 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Registry entries: Bioconda		Upload screenshot

parasail ??? missing short description for package parasail :-( https://github.com/jeffdaily/parasail Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package parasail Release Version Architectures bookworm 2.6+dfsg-1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x sid 2.6.2+dfsg-2 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bullseye 2.4.3+dfsg-2 amd64,arm64,armhf,i386 forky 2.6.2+dfsg-2 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x trixie 2.6.2+dfsg-2 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x Popcon: 8 users (37 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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picard-tools ??? missing short description for package picard-tools :-( https://broadinstitute.github.io/picard/ Maintainer: Debian Med Packaging Team (Pierre Gruet)	Versions of package picard-tools Release Version Architectures trixie 3.3.0+dfsg-2 all forky 3.4.0+dfsg-1 all bullseye 2.24.1+dfsg-1 all sid 3.4.0+dfsg-1 all bookworm 2.27.5+dfsg-2 all Popcon: 13 users (41 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
The package is enhanced by the following packages: multiqc Please cite: Broad Institute: Picard toolkit. Broad Institute, GitHub repository (2019) Registry entries: Bio.tools  SciCrunch  Bioconda  Topics: Sequencing; Document, record and content management		Upload screenshot

picopore ??? missing short description for package picopore :-( https://github.com/scottgigante/picopore Maintainer: Debian Med Packaging Team (Andreas Tille)	Versions of package picopore Release Version Architectures forky 1.2.0-3 all bullseye 1.2.0-2 all bookworm 1.2.0-2 all trixie 1.2.0-3 all sid 1.2.0-3 all Popcon: 6 users (32 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Scott Gigante: Picopore: A tool for reducing the storage size of Oxford Nanopore Technologies datasets without loss of functionality. (PubMed,eprint) F1000Res 6:227 (2017) Registry entries: Bio.tools  Bioconda		Upload screenshot

pigx-rnaseq ??? missing short description for package pigx-rnaseq :-( https://github.com/BIMSBbioinfo/pigx_rnaseq Maintainer: Debian Med Packaging Team (Santiago Vila)	Versions of package pigx-rnaseq Release Version Architectures bookworm 0.1.0-1.1 all trixie 0.1.1-1 all sid 0.1.1-3 all bullseye 0.0.10+ds-2 all Popcon: 5 users (31 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Ricardo Wurmus, Bora Uyar, Brendan Osberg, Vedran Franke, Alexander Gosdschan, Katarzyna Wreczycka, Jonathan Ronen and and Altuna Akalin: PiGx: Reproducible Genomics Analysis Pipelines with GNU Guix. (PubMed,eprint) GigaScience 7(12):giy123 (2018) Registry entries: SciCrunch		Upload screenshot

pinfish ??? missing short description for package pinfish :-( https://github.com/nanoporetech/pinfish Maintainer: Debian Med Packaging Team (Andreas Tille)	Versions of package pinfish Release Version Architectures forky 0.1.0+ds-4 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x trixie 0.1.0+ds-4 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x bookworm 0.1.0+ds-3 amd64,arm64,mips64el,ppc64el,s390x sid 0.1.0+ds-4 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bullseye 0.1.0+ds-2 amd64,arm64 Popcon: 4 users (34 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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plasmidid ??? missing short description for package plasmidid :-( https://github.com/BU-ISCIII/plasmidID Maintainer: Debian Med Packaging Team (Andreas Tille)	Versions of package plasmidid Release Version Architectures forky 1.6.5+dfsg-2 amd64,arm64 trixie 1.6.5+dfsg-2 amd64,arm64 bookworm 1.6.5+dfsg-2 amd64 bullseye 1.6.3+dfsg-3 amd64 sid 1.6.5+dfsg-2 amd64,arm64 Popcon: 6 users (33 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Registry entries: Bioconda		Upload screenshot

plink1.9 ??? missing short description for package plink1.9 :-( https://www.cog-genomics.org/plink/1.9/ Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package plink1.9 Release Version Architectures trixie 1.90~b7.7-241022-2 amd64,arm64,armel,armhf,i386 sid 1.90~b7.7-241022-2 amd64,arm64,armhf,i386 forky 1.90~b7.7-241022-2 amd64,arm64,armhf,i386 bookworm 1.90~b6.26-220402-1 amd64,armel,armhf,i386,mipsel bullseye 1.90~b6.21-201019-1 amd64,armhf,i386 Popcon: 148 users (31 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Christopher C. Chang, Carson C. Chow, Laurent C.A.M. Tellier, Shashaank Vattikuti, Shaun M. Purcell and James J. Lee: Second-generation PLINK: rising to the challenge of larger and richer datasets. (eprint) GigaScience 4(1):7 (2015) Registry entries: Bio.tools  SciCrunch  Bioconda		Upload screenshot

plink2 ??? missing short description for package plink2 :-( https://www.cog-genomics.org/plink/2.0/ Maintainer: Debian Med Packaging Team (Dylan Aïssi)	Versions of package plink2 Release Version Architectures sid 2.00~a6.9-250129+dfsg-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bookworm 2.00~a3.5-220809+dfsg-1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x trixie 2.00~a6.9-250129+dfsg-1 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x forky 2.00~a6.9-250129+dfsg-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bullseye 2.00~a3-210203+dfsg-1 amd64,arm64,armhf,i386 upstream 260504 Popcon: 8 users (35 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Christopher C. Chang, Carson C. Chow, Laurent C.A.M. Tellier, Shashaank Vattikuti, Shaun M. Purcell and James J. Lee: Second-generation PLINK: rising to the challenge of larger and richer datasets. (eprint) GigaScience 4(1):7 (2015) Registry entries: SciCrunch		Upload screenshot

plip ??? missing short description for package plip :-( https://projects.biotec.tu-dresden.de/plip-web/plip/ Maintainer: Debian Med Packaging Team (Sergio Durigan Junior)	Versions of package plip Release Version Architectures bullseye 2.1.7+dfsg-1 all bookworm 2.2.2+dfsg-1 all trixie 2.4.0+dfsg-4 all sid 2.4.0+dfsg-4 all forky 2.4.0+dfsg-4 all upstream 3.0.0 Popcon: 9 users (33 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Sebastian Salentin, Sven Schreiber, V. Joachim Haupt, Melissa F. Adasme and Michael Schroeder: PLIP: fully automated protein–ligand interaction profiler. (eprint) Nucleic Acids Research (W1) (2015) Registry entries: Bio.tools		Upload screenshot

porechop ??? missing short description for package porechop :-( https://rrwick.github.io/Porechop Maintainer: Debian Med Packaging Team (Andreas Tille)	Versions of package porechop Release Version Architectures forky 0.2.4+dfsg-6 amd64,arm64,armhf,i386,ppc64el,riscv64,s390x bookworm 0.2.4+dfsg-4 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x bullseye 0.2.4+dfsg-2 amd64,arm64,armhf,i386 sid 0.2.4+dfsg-9 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x trixie 0.2.4+dfsg-6 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x Popcon: 6 users (34 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Registry entries: Bioconda		Upload screenshot

poretools ??? missing short description for package poretools :-( https://poretools.readthedocs.org Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package poretools Release Version Architectures bullseye 0.6.0+dfsg-5 all bookworm 0.6.0+dfsg-6 all forky 0.6.0+dfsg-7 all sid 0.6.0+dfsg-7 all trixie 0.6.0+dfsg-7 all Popcon: 8 users (35 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Nicholas Loman and Aaron Quinlan: Poretools: a toolkit for analyzing nanopore sequence data. (PubMed,eprint) Bioinformatics 30(23):3399-3401 (2014) Registry entries: Bio.tools  Bioconda		Upload screenshot

pplacer ??? missing short description for package pplacer :-( https://github.com/matsen/pplacer Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package pplacer Release Version Architectures bullseye 1.1~alpha19-4 amd64,arm64 sid 1.1~alpha19-8 amd64,arm64,ppc64el,riscv64,s390x upstream 1.1.alpha22 Popcon: 0 users (0 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Frederick A Matsen, Robin B Kodner and E Virginia Armbrust: pplacer: linear time maximum-likelihood and Bayesian phylogenetic placement of sequences onto a fixed reference tree. (PubMed,eprint) BMC Bioinformatics 11:538 (2010) Registry entries: Bioconda		Upload screenshot

presto ??? missing short description for package presto :-( https://presto.readthedocs.io Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package presto Release Version Architectures forky 0.7.6-1 all bookworm 0.7.1-1 all trixie 0.7.2-2 all bullseye 0.6.2-1 all sid 0.7.6-1 all upstream 0.7.9 Popcon: 7 users (33 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Jason A. Vander Heiden, Gur Yaari, Mohamed Uduman, Joel N.H. Stern, Kevin C. O’Connor, David A. Hafler, Francois Vigneault and Steven H. Kleinstein: pRESTO: a toolkit for processing high-throughput sequencing raw reads of lymphocyte receptor repertoires. (PubMed,eprint) Bioinformatics 30(13):1930-1932 (2014) Registry entries: Bio.tools  SciCrunch  Bioconda		Upload screenshot

prinseq-lite ??? missing short description for package prinseq-lite :-( http://prinseq.sourceforge.net/ Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package prinseq-lite Release Version Architectures bookworm 0.20.4-6 all sid 0.20.4-6 all forky 0.20.4-6 all trixie 0.20.4-6 all bullseye 0.20.4-6 all Popcon: 5 users (32 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Schmieder R and Edwards R: Quality control and preprocessing of metagenomic datasets. (PubMed,eprint) Bioinformatics 27(6):863-864 (2011)		Upload screenshot

prokka ??? missing short description for package prokka :-( https://github.com/tseemann/prokka Maintainer: Debian Med Packaging Team (Michael R. Crusoe)	Versions of package prokka Release Version Architectures bookworm 1.14.6+dfsg-4 amd64 bullseye 1.14.6+dfsg-3 amd64 trixie 1.14.6+dfsg-6 all forky 1.14.6+dfsg-6 all sid 1.14.6+dfsg-6 all upstream 1.15.6 Popcon: 5 users (35 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
The package is enhanced by the following packages: multiqc Please cite: Torsten Seemann: Prokka: rapid prokaryotic genome annotation. (PubMed,eprint) Bioinformatics 30(14):2068-2069 (2014) Registry entries: Bio.tools  SciCrunch  Bioconda		Upload screenshot

proteinortho ??? missing short description for package proteinortho :-( https://gitlab.com/paulklemm_PHD/proteinortho Maintainer: Debian Med Packaging Team (Andreas Tille)	Versions of package proteinortho Release Version Architectures forky 6.3.1+dfsg-1 amd64,arm64,ppc64el,riscv64,s390x trixie 6.3.1+dfsg-1 amd64,arm64,ppc64el,riscv64,s390x bookworm 6.1.7+dfsg-1 amd64,arm64,ppc64el,s390x bullseye 6.0.28+dfsg-1 amd64,arm64 sid 6.3.1+dfsg-1 amd64,arm64,ppc64el,riscv64,s390x Popcon: 5 users (35 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Marcus Lechner, Sven Findeiß, Lydia Steiner, Manja Marz, Peter F Stadler and Sonja J Prohaska: Proteinortho: Detection of (Co-)orthologs in large-scale analysis. (PubMed,eprint) BMC Bioinformatics 12:124 (2011)		Upload screenshot

pybedtools-bin ??? missing short description for package pybedtools-bin :-( https://daler.github.io/pybedtools/ Maintainer: Debian Med Packaging Team (Santiago Vila)	Versions of package pybedtools-bin Release Version Architectures bookworm 0.9.0-4 all bullseye 0.8.0-5 all sid 0.10.0-6 all forky 0.10.0-6 all trixie 0.10.0-4 all upstream 0.12.0 Popcon: users ( upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: R. K. Dale, B. S. Pedersen and A. R. Quinlan: Pybedtools: a flexible Python library for manipulating genomic datasets and annotations". Bioinformatics 27(24):3423-3424 (2011) Registry entries: Bio.tools  Bioconda		Upload screenshot

pycoqc ??? missing short description for package pycoqc :-( https://github.com/a-slide/pycoQC Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package pycoqc Release Version Architectures trixie 2.5.2+dfsg-4 all bullseye 2.5.2+dfsg-1 all forky 2.5.2+dfsg-5 all bookworm 2.5.2+dfsg-3 all sid 2.5.2+dfsg-5 all Popcon: 6 users (34 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
The package is enhanced by the following packages: multiqc Registry entries: Bioconda		Upload screenshot

python3-biom-format ??? missing short description for package python3-biom-format :-( https://biom-format.org/ Maintainer: Debian Med Packaging Team (Andreas Tille)	Versions of package python3-biom-format Release Version Architectures sid 2.1.17-3 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bookworm 2.1.12-3 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x trixie 2.1.16-1 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x bullseye 2.1.10-1 amd64,arm64,armhf,i386 forky 2.1.17-3 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x Popcon: 35 users (41 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Daniel McDonald, Jose C. Clemente, Justin Kuczynski, Jai R. Rideout, Jesse Stombaugh, Doug Wendel, Andreas Wilke, Susan Huse, John Hufnagle, Folker Meyer, Rob Knight and J. G. Caporaso: The Biological Observation Matrix (BIOM) format or: how I learned to stop worrying and love the ome-ome. (eprint) GigaScience 1:7 (2012)		Upload screenshot

python3-biopython ??? missing short description for package python3-biopython :-( https://biopython.org Maintainer: Debian Med Packaging Team (Karsten Schöke)	Versions of package python3-biopython Release Version Architectures sid 1.87+dfsg-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bullseye 1.78+dfsg-4 amd64,arm64,armhf,i386 bookworm 1.80+dfsg-4 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x trixie 1.85+dfsg-4 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x forky 1.87+dfsg-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x Popcon: 62 users (130 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Peter J. A. Cock, Tiago Antao, Jeffrey T. Chang, Brad A. Chapman, Cymon J. Cox, Andrew Dalke, Iddo Friedberg, Thomas Hamelryck, Frank Kauff, Bartek Wilczynski and Michiel J. L. de Hoon: Biopython: freely available Python tools for computational molecular biology and bioinformatics. (PubMed,eprint) Bioinformatics 25(11):1422-1423 (2009) Registry entries: Bio.tools  SciCrunch		Upload screenshot

python3-bx ??? missing short description for package python3-bx :-( https://github.com/bxlab/bx-python Maintainer: Debian Med Packaging Team (Santiago Vila)	Versions of package python3-bx Release Version Architectures trixie 0.13.0-1 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x sid 0.13.0-2 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x forky 0.13.0-2 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bookworm 0.9.0-1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x bullseye 0.8.9-1 amd64,arm64,armhf,i386 upstream 0.14.0 Popcon: 11 users (30 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Registry entries: Bioconda		Upload screenshot

python3-cgecore ??? missing short description for package python3-cgecore :-( https://bitbucket.org/genomicepidemiology/cge_core_module/ Maintainer: Debian Med Packaging Team (Alexandre Detiste)	Versions of package python3-cgecore Release Version Architectures sid 1.5.6+ds-2 all bullseye 1.5.6+ds-1 all bookworm 1.5.6+ds-1 all trixie 1.5.6+ds-2 all forky 1.5.6+ds-2 all upstream 2.0.1 Popcon: 3 users (36 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
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python3-cogent3 ??? missing short description for package python3-cogent3 :-( https://github.com/cogent3/cogent3 Maintainer: Debian Med Packaging Team (Santiago Vila)	Versions of package python3-cogent3 Release Version Architectures bullseye 2020.12.21a+dfsg-4+deb11u1 amd64,arm64,armhf,i386 sid 2024.5.7a1+dfsg-3 amd64,arm64 bookworm 2023.2.12a1+dfsg-2+deb12u1 amd64,arm64,mips64el,ppc64el,s390x upstream 2026.5.25a0 Popcon: 0 users (1 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Rob Knight, Peter Maxwell, Amanda Birmingham, Jason Carnes, J Gregory Caporaso, Brett C Easton, Michael Eaton, Micah Hamady, Helen Lindsay, Zongzhi Liu, Catherine Lozupone, Daniel McDonald, Michael Robeson, Raymond Sammut, Sandra Smit, Matthew J Wakefield, Jeremy Widmann, Shandy Wikman, Stephanie Wilson, Hua Ying and Gavin A Huttley: PyCogent: a toolkit for making sense from sequence. (PubMed,eprint) Genome Biology 8(8):R171 (2007) Registry entries: Bio.tools  Bioconda		Upload screenshot

python3-cooler ??? missing short description for package python3-cooler :-( https://github.com/mirnylab/cooler Maintainer: Debian Med Packaging Team (Alexandre Detiste)	Versions of package python3-cooler Release Version Architectures bookworm 0.9.1-1 amd64,arm64,mips64el,ppc64el trixie 0.10.3-1 amd64,arm64,ppc64el,riscv64 forky 0.10.3-1 amd64,arm64,loong64,ppc64el,riscv64 sid 0.10.3-1 amd64,arm64,loong64,ppc64el,riscv64 upstream 0.10.4 Popcon: 7 users (33 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
The package is enhanced by the following packages: python3-cooler-examples Please cite: Nezar Abdennur and Leonid A Mirny: Cooler: scalable storage for Hi-C data and other genomically labeled arrays. (PubMed) Bioinformatics 36(1):311–316 (2019) Registry entries: Bioconda		Upload screenshot

python3-cyvcf2 ??? missing short description for package python3-cyvcf2 :-( https://github.com/brentp/cyvcf2 Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package python3-cyvcf2 Release Version Architectures bullseye 0.30.4-4 amd64,arm64,armhf,i386 forky 0.32.0-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x trixie 0.31.1-2 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x sid 0.32.0-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bookworm 0.30.18-1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x upstream 0.33.0 Popcon: 8 users (35 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Brent S. Pedersen and Aaron R. Quinlan: cyvcf2: fast, flexible variant analysis with Python. (eprint) Bioinformatics 33(12):1867–1869 (2017) Registry entries: Bio.tools  Bioconda		Upload screenshot

python3-depinfo ??? missing short description for package python3-depinfo :-( https://github.com/Midnighter/dependency-info Maintainer: Debian Python Team (Santiago Vila)	Versions of package python3-depinfo Release Version Architectures sid 2.2.0-4 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bullseye 1.6.0-1 amd64,arm64,armhf,i386 forky 2.2.0-4 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x trixie 2.2.0-3 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x bookworm 2.2.0-1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x upstream 2.2.0rc3 Popcon: 1 users (2 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
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python3-drmaa ??? missing short description for package python3-drmaa :-( https://drmaa-python.readthedocs.io/en/latest/ Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package python3-drmaa Release Version Architectures bookworm 0.7.9-3 all sid 0.7.9-3 all Popcon: 0 users (0 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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python3-etelemetry ??? missing short description for package python3-etelemetry :-( https://github.com/sensein/etelemetry-client/ Maintainer: Debian Med Packaging Team (Karsten Schöke)	Versions of package python3-etelemetry Release Version Architectures trixie 0.3.1-1 all sid 0.3.1-2 all forky 0.3.1-2 all bookworm 0.3.0-3 all bullseye 0.2.0-4 all Popcon: 38 users (110 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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python3-gffutils ??? missing short description for package python3-gffutils :-( https://daler.github.io/gffutils Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package python3-gffutils Release Version Architectures trixie 0.13-2 all bullseye 0.10.1-2 all sid 0.13-5 all forky 0.13-5 all bookworm 0.11.1-3 all upstream 0.14 Popcon: 28 users (53 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
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python3-htseq ??? missing short description for package python3-htseq :-( https://www-huber.embl.de/users/anders/HTSeq/doc/overview.html Maintainer: Debian Med Packaging Team (Andreas Tille)	Versions of package python3-htseq Release Version Architectures trixie 2.0.9+dfsg-1 amd64,arm64,armel,armhf,i386,ppc64el,riscv64 sid 2.0.9+dfsg-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64 forky 2.0.9+dfsg-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64 bookworm 1.99.2-1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el bullseye 0.13.5-1 amd64,arm64,armhf,i386 upstream 2.1.2 Popcon: 27 users (37 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Simon Anders, Paul Theodor Pyl and Wolfgang Huber: HTSeq—a Python framework to work with high-throughput sequencing data. (PubMed,eprint) Bioinformatics 31(2):166-169 (2015) Registry entries: Bio.tools  SciCrunch  Bioconda		Upload screenshot

python3-nanoget ??? missing short description for package python3-nanoget :-( https://github.com/wdecoster/nanoget Maintainer: Debian Med Packaging Team (Nilesh Patra)	Versions of package python3-nanoget Release Version Architectures trixie 1.19.3-1 all bookworm 1.16.1-2 all bullseye 1.12.2-4 all forky 1.19.3-1 all sid 1.19.3-1 all upstream 1.46.2 Popcon: 2 users (36 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
The package is enhanced by the following packages: python3-nanoget-examples		Upload screenshot

python3-nanomath ??? missing short description for package python3-nanomath :-( https://github.com/wdecoster/nanomath Maintainer: Debian Med Packaging Team (Nilesh Patra)	Versions of package python3-nanomath Release Version Architectures forky 1.4.0+ds-1 all bullseye 1.2.0+ds-1 all sid 1.4.0+ds-1 all bookworm 1.2.1+ds-1 all trixie 1.2.1+ds-1 all Popcon: 6 users (33 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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python3-pairix ??? missing short description for package python3-pairix :-( https://github.com/4dn-dcic/pairix Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package python3-pairix Release Version Architectures bookworm 0.3.7-6 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el trixie 0.3.8-1 amd64,arm64,armel,armhf,i386,ppc64el,riscv64 forky 0.3.8-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64 sid 0.3.8-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64 bullseye 0.3.7-3 amd64,arm64,armhf,i386 upstream 0.3.9 Popcon: 2 users (36 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
The package is enhanced by the following packages: python-pairix-examples Registry entries: Bioconda		Upload screenshot

python3-pairtools ??? missing short description for package python3-pairtools :-( https://github.com/mirnylab/pairtools Maintainer: Debian Med Packaging Team (Alexandre Detiste)	Versions of package python3-pairtools Release Version Architectures trixie 1.1.3-1 amd64,arm64,ppc64el,riscv64 bookworm 1.0.2-2 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el bullseye 0.3.0-2 amd64,arm64,armhf,i386 forky 1.1.3-2 amd64,arm64,loong64,ppc64el,riscv64 sid 1.1.3-2 amd64,arm64,loong64,ppc64el,riscv64 Popcon: 6 users (33 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
The package is enhanced by the following packages: python3-pairtools-examples Registry entries: Bioconda		Upload screenshot

python3-pauvre ??? missing short description for package python3-pauvre :-( https://github.com/conchoecia/pauvre Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package python3-pauvre Release Version Architectures bullseye 0.2.2-2 all bookworm 0.2.3-2 all trixie 0.2.3-4 all sid 0.2.3-4 all forky 0.2.3-4 all Popcon: 1 users (0 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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python3-pbcommand ??? missing short description for package python3-pbcommand :-( https://pbcommand.readthedocs.org/en/latest/ Maintainer: Debian Med Packaging Team (Alexandre Detiste)	Versions of package python3-pbcommand Release Version Architectures bullseye 2.1.1+git20201023.cc0ed3d-1 all bookworm 2.1.1+git20220616.3f2e6c2-2 all sid 2.1.1+git20231020.28d1635-2 all trixie 2.1.1+git20231020.28d1635-1 all Popcon: 4 users (34 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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python3-pbcore ??? missing short description for package python3-pbcore :-( https://github.com/PacificBiosciences/pbcore Maintainer: Debian Med Packaging Team (Santiago Vila)	Versions of package python3-pbcore Release Version Architectures bookworm 2.1.2+dfsg-5 all bullseye 1.7.1+git20200430.a127b1e+dfsg-1 all trixie 2.1.2+dfsg-11 all sid 2.1.2+dfsg-13 all upstream 2.6.0 Popcon: 10 users (32 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
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python3-pyani ??? missing short description for package python3-pyani :-( https://github.com/widdowquinn/pyani Maintainer: Debian Med Packaging Team (Nilesh Patra)	Versions of package python3-pyani Release Version Architectures bullseye 0.2.10-2 amd64,arm64,armhf,i386 sid 0.2.13-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x forky 0.2.13-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x trixie 0.2.13-1 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x bookworm 0.2.12-2 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x upstream 0.2.13.1 Popcon: 5 users (33 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Leighton Pritchard, Rachel H. Glover, Sonia Humphris, John G. Elphinstone and Ian K. Toth: Genomics and taxonomy in diagnostics for food security: soft-rotting enterobacterial plant pathogens. (eprint) Anal. Methods 8(1):12-24 (2016) Registry entries: Bioconda		Upload screenshot

python3-pychopper ??? missing short description for package python3-pychopper :-( https://github.com/epi2me-labs/pychopper Maintainer: Debian Med Packaging Team (Karsten Schöke)	Versions of package python3-pychopper Release Version Architectures forky 2.7.10-3 all bookworm 2.7.2-1 all sid 2.7.10-3 all bullseye 2.5.0-1 all Popcon: 0 users (0 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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python3-pydicom ??? missing short description for package python3-pydicom :-( https://pydicom.github.io Maintainer: Debian Med Packaging Team (Karsten Schöke)	Versions of package python3-pydicom Release Version Architectures sid 3.0.2-2 all bookworm 2.3.1-1 all trixie 2.4.3-2 all forky 2.4.3-3 all bullseye 2.0.0-1 all Popcon: 67 users (131 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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python3-pyfaidx ??? missing short description for package python3-pyfaidx :-( https://github.com/mdshw5/pyfaidx Maintainer: Debian Med Packaging Team (Alexandre Detiste)	Versions of package python3-pyfaidx Release Version Architectures bookworm 0.7.1-2 all trixie 0.8.1.3-2 all sid 0.8.1.3-2 all forky 0.8.1.3-2 all bullseye 0.5.9.2-1 all upstream 0.9.0.4 Popcon: 35 users (54 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Matthew D. Shirley, Zhaorong Ma, Brent S. Pedersen and Sarah J. Wheelan: Efficient "pythonic" access to FASTA files using pyfaidx. PeerJ PrePrints 3:e1196 (2015) Registry entries: Bio.tools		Upload screenshot

python3-pynn ??? missing short description for package python3-pynn :-( https://neuralensemble.org/trac/PyNN Maintainer: Debian Med Packaging Team (Alexandre Detiste)	Versions of package python3-pynn Release Version Architectures sid 0.10.1-5 all bookworm 0.10.1-2 all forky 0.10.1-5 all trixie 0.10.1-5 all bullseye 0.9.6-1 all upstream 0.12.4 Popcon: 0 users (0 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
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python3-pysam ??? missing short description for package python3-pysam :-( https://pysam.readthedocs.org/en/latest Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package python3-pysam Release Version Architectures forky 0.23.3+ds-2 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64 bullseye 0.15.4+ds-3 amd64,arm64,armhf,i386 bookworm 0.20.0+ds-3 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el trixie 0.23.0+ds-1 amd64,arm64,armel,armhf,i386,ppc64el,riscv64 sid 0.23.3+ds-2 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64 upstream 0.24.0 Popcon: 45 users (55 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
The package is enhanced by the following packages: python-pysam-tests Registry entries: Bio.tools  Bioconda		Upload screenshot

python3-questplus ??? missing short description for package python3-questplus :-( https://github.com/hoechenberger/questplus Maintainer: Debian Med Packaging Team (Santiago Vila)	Versions of package python3-questplus Release Version Architectures bookworm 2019.4-6 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x bullseye 2019.4-3 amd64,arm64,armhf,i386 sid 2023.1-5 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x forky 2023.1-5 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x trixie 2023.1-3 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x Popcon: 4 users (1 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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python3-scitrack ??? missing short description for package python3-scitrack :-( https://github.com/HuttleyLab/scitrack Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package python3-scitrack Release Version Architectures bookworm 2021.5.3-3 all trixie 2024.10.8-1 all forky 2024.10.8-1 all bullseye 2020.6.5-1 all sid 2024.10.8-1 all Popcon: 0 users (4 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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python3-screed ??? missing short description for package python3-screed :-( https://screed.readthedocs.org Maintainer: Debian Med Packaging Team (Karsten Schöke)	Versions of package python3-screed Release Version Architectures sid 1.2.0-1 all bookworm 1.0.5-4 all bullseye 1.0.5-1 all forky 1.2.0-1 all trixie 1.1.3-1 all Popcon: 7 users (37 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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python3-seirsplus ??? missing short description for package python3-seirsplus :-( https://github.com/ryansmcgee/seirsplus Maintainer: Debian Med Packaging Team (Andreas Tille)	Versions of package python3-seirsplus Release Version Architectures sid 1.1.0-1 all bookworm 1.0.9-1 all trixie 1.0.9-2 all bullseye 0.1.4+git20200528.5c04080+ds-2 all forky 1.1.0-1 all Popcon: 0 users (3 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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python3-streamz ??? missing short description for package python3-streamz :-( https://github.com/python-streamz/streamz/ Maintainer: Debian Python Team (Alexandre Detiste)	Versions of package python3-streamz Release Version Architectures forky 0.6.5-2 all trixie 0.6.4-2 all bookworm 0.6.4-1 all bullseye 0.6.2-1 all sid 0.6.5-2 all upstream 0.6.6 Popcon: 2 users (35 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
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python3-tinyalign ??? missing short description for package python3-tinyalign :-( https://github.com/marcelm/tinyalign Maintainer: Debian Med Packaging Team (Santiago Vila)	Versions of package python3-tinyalign Release Version Architectures trixie 0.2.2-1 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x sid 0.2.2-2 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bookworm 0.2.1-1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x forky 0.2.2-2 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bullseye 0.2-5 amd64,arm64,armhf,i386 Popcon: 2 users (35 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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python3-toolz ??? missing short description for package python3-toolz :-( https://github.com/pytoolz/toolz/ Maintainer: Debian Python Team (Diane Trout)	Versions of package python3-toolz Release Version Architectures sid 1.1.0-1 all bullseye 0.9.0-1.1 all forky 1.1.0-1 all bookworm 0.12.0-1 all trixie 1.0.0-2 all Popcon: 277 users (193 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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python3-torch ??? missing short description for package python3-torch :-( https://pytorch.org/ Maintainer: Debian Deep Learning Team (Aron Xu)	Versions of package python3-torch Release Version Architectures trixie 2.6.0+dfsg-7 amd64,arm64,ppc64el,riscv64,s390x bullseye 1.7.1-7 amd64,arm64,armhf bullseye-security 1.7.1-7+deb11u1 amd64,arm64,armhf bookworm 1.13.1+dfsg-4 amd64,arm64,ppc64el,s390x forky 2.6.0+dfsg-9 amd64,arm64,ppc64el,riscv64,s390x sid 2.12.0+dfsg2-1 riscv64 sid 2.12.0+dfsg2-2 amd64,arm64,ppc64el,s390x Popcon: 288 users (152 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Adam Paszke, Sam Gross, Francisco Massa, Adam Lerer, James Bradbury, Gregory Chanan, Trevor Killeen, Zeming Lin, Natalia Gimelshein, Luca Antiga, Alban Desmaison, Andreas Kopf, Edward Yang, Zachary DeVito, Martin Raison, Alykhan Tejani, Sasank Chilamkurthy, Benoit Steiner, Lu Fang, Junjie Bai and Soumith Chintala: Registry entries: SciCrunch		Upload screenshot

python3-tornado ??? missing short description for package python3-tornado :-( https://www.tornadoweb.org/ Maintainer: Debian Python Team (Scott Talbert)	Versions of package python3-tornado Release Version Architectures trixie-security 6.4.2-3+deb13u2 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x bookworm-security 6.2.0-3+deb12u4 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x bullseye 6.1.0-1 amd64,arm64,armhf,i386 bullseye-security 6.1.0-1+deb11u4 amd64,arm64,armhf,i386 trixie 6.4.2-3+deb13u2 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x forky 6.5.5-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x sid 6.5.5-2 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bookworm 6.2.0-3+deb12u4 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x Popcon: 6962 users (9629 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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python3-treetime ??? missing short description for package python3-treetime :-( https://github.com/neherlab/treetime Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package python3-treetime Release Version Architectures sid 0.11.4-1 all bookworm 0.9.4-1 all trixie 0.11.4-1 all forky 0.11.4-1 all bullseye 0.8.1-1 all upstream 0.12.1 Popcon: 10 users (33 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
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python3-vcf ??? missing short description for package python3-vcf :-( https://github.com/jamescasbon/PyVCF Maintainer: Debian Med Packaging Team (Andreas Tille)	Versions of package python3-vcf Release Version Architectures bookworm 0.6.8+git20170215.476169c-9 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el forky 0.6.8+git20170215.476169c-12 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64 trixie 0.6.8+git20170215.476169c-11 amd64,arm64,armel,armhf,i386,ppc64el,riscv64 bullseye 0.6.8+git20170215.476169c-7 amd64,arm64,armhf,i386 sid 0.6.8+git20170215.476169c-12 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64 Popcon: 8 users (37 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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q2-cutadapt ??? missing short description for package q2-cutadapt :-( https://qiime2.org/ Maintainer: Debian Med Packaging Team (Michael R. Crusoe)	Versions of package q2-cutadapt Release Version Architectures bookworm 2022.11.1-2 amd64,arm64,mips64el,ppc64el sid 2024.5.0-1 amd64,arm64,loong64,ppc64el,riscv64 bullseye 2020.11.1-1 amd64,arm64 upstream 2026.4.0 Popcon: 0 users (0 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Evan Bolyen, Jai Ram Rideout, Matthew R Dillon, Nicholas A Bokulich, Christian Abnet, Gabriel A Al-Ghalith, Harriet Alexander, Eric J Alm, Manimozhiyan Arumugam, Francesco Asnicar, Yang Bai, Jordan E Bisanz, Kyle Bittinger, Asker Brejnrod, Colin J Brislawn, C Titus Brown, Benjamin J Callahan, Andrés Mauricio Caraballo-Rodríguez, John Chase, Emily Cope, Ricardo Da Silva, Pieter C Dorrestein, Gavin M Douglas, Daniel M Durall, Claire Duvallet, Christian F Edwardson, Madeleine Ernst, Mehrbod Estaki, Jennifer Fouquier, Julia M Gauglitz, Deanna L Gibson, Antonio Gonzalez, Kestrel Gorlick, Jiarong Guo, Benjamin Hillmann, Susan Holmes, Hannes Holste, Curtis Huttenhower, Gavin Huttley, Stefan Janssen, Alan K Jarmusch, Lingjing Jiang, Benjamin Kaehler, Kyo Bin Kang, Christopher R Keefe, Paul Keim, Scott T Kelley, Dan Knights, Irina Koester, Tomasz Kosciolek, Jorden Kreps, Morgan GI Langille, Joslynn Lee, Ruth Ley, Yong-Xin Liu, Erikka Loftfield, Catherine Lozupone, Massoud Maher, Clarisse Marotz, Bryan D Martin, Daniel McDonald, Lauren J McIver, Alexey V Melnik, Jessica L Metcalf, Sydney C Morgan, Jamie Morton, Ahmad Turan Naimey, Jose A Navas-Molina, Louis Felix Nothias, Stephanie B Orchanian, Talima Pearson, Samuel L Peoples, Daniel Petras, Mary Lai Preuss, Elmar Pruesse, Lasse Buur Rasmussen, Adam Rivers, Michael S Robeson, Patrick Rosenthal, Nicola Segata, Michael Shaffer, Arron Shiffer, Rashmi Sinha, Se Jin Song, John R Spear, Austin D Swafford, Luke R Thompson, Pedro J Torres, Pauline Trinh, Anupriya Tripathi, Peter J Turnbaugh, Sabah Ul-Hasan, Justin JJ van der Hooft, Fernando Vargas, Yoshiki Vázquez-Baeza, Emily Vogtmann, Max von Hippel, William Walters, Yunhu Wan, Mingxun Wang, Jonathan Warren, Kyle C Weber, Chase HD Williamson, Amy D Willis, Zhenjiang Zech Xu, Jesse R Zaneveld, Yilong Zhang, Qiyun Zhu, Rob Knight and J Gregory Caporaso: Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2. (eprint) Nature Biotechnology 37 (2019)		Upload screenshot

q2-feature-table ??? missing short description for package q2-feature-table :-( https://qiime2.org/ Maintainer: Debian Med Packaging Team (Michael R. Crusoe)	Versions of package q2-feature-table Release Version Architectures bookworm 2022.11.1+dfsg-2 all bullseye 2020.11.1+dfsg-1 all sid 2024.5.0+dfsg-1 all upstream 2026.4.0 Popcon: 0 users (0 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Evan Bolyen, Jai Ram Rideout, Matthew R Dillon, Nicholas A Bokulich, Christian Abnet, Gabriel A Al-Ghalith, Harriet Alexander, Eric J Alm, Manimozhiyan Arumugam, Francesco Asnicar, Yang Bai, Jordan E Bisanz, Kyle Bittinger, Asker Brejnrod, Colin J Brislawn, C Titus Brown, Benjamin J Callahan, Andrés Mauricio Caraballo-Rodríguez, John Chase, Emily Cope, Ricardo Da Silva, Pieter C Dorrestein, Gavin M Douglas, Daniel M Durall, Claire Duvallet, Christian F Edwardson, Madeleine Ernst, Mehrbod Estaki, Jennifer Fouquier, Julia M Gauglitz, Deanna L Gibson, Antonio Gonzalez, Kestrel Gorlick, Jiarong Guo, Benjamin Hillmann, Susan Holmes, Hannes Holste, Curtis Huttenhower, Gavin Huttley, Stefan Janssen, Alan K Jarmusch, Lingjing Jiang, Benjamin Kaehler, Kyo Bin Kang, Christopher R Keefe, Paul Keim, Scott T Kelley, Dan Knights, Irina Koester, Tomasz Kosciolek, Jorden Kreps, Morgan GI Langille, Joslynn Lee, Ruth Ley, Yong-Xin Liu, Erikka Loftfield, Catherine Lozupone, Massoud Maher, Clarisse Marotz, Bryan D Martin, Daniel McDonald, Lauren J McIver, Alexey V Melnik, Jessica L Metcalf, Sydney C Morgan, Jamie Morton, Ahmad Turan Naimey, Jose A Navas-Molina, Louis Felix Nothias, Stephanie B Orchanian, Talima Pearson, Samuel L Peoples, Daniel Petras, Mary Lai Preuss, Elmar Pruesse, Lasse Buur Rasmussen, Adam Rivers, Michael S Robeson, Patrick Rosenthal, Nicola Segata, Michael Shaffer, Arron Shiffer, Rashmi Sinha, Se Jin Song, John R Spear, Austin D Swafford, Luke R Thompson, Pedro J Torres, Pauline Trinh, Anupriya Tripathi, Peter J Turnbaugh, Sabah Ul-Hasan, Justin JJ van der Hooft, Fernando Vargas, Yoshiki Vázquez-Baeza, Emily Vogtmann, Max von Hippel, William Walters, Yunhu Wan, Mingxun Wang, Jonathan Warren, Kyle C Weber, Chase HD Williamson, Amy D Willis, Zhenjiang Zech Xu, Jesse R Zaneveld, Yilong Zhang, Qiyun Zhu, Rob Knight and J Gregory Caporaso: Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2. (eprint) Nature Biotechnology 37 (2019)		Upload screenshot

q2-quality-filter ??? missing short description for package q2-quality-filter :-( https://qiime2.org/ Maintainer: Debian Med Packaging Team (Michael R. Crusoe)	Versions of package q2-quality-filter Release Version Architectures sid 2024.5.0-1 all bookworm 2022.11.1-2 all bullseye 2020.11.1-2 all upstream 2026.4.0 Popcon: 0 users (0 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Evan Bolyen, Jai Ram Rideout, Matthew R Dillon, Nicholas A Bokulich, Christian Abnet, Gabriel A Al-Ghalith, Harriet Alexander, Eric J Alm, Manimozhiyan Arumugam, Francesco Asnicar, Yang Bai, Jordan E Bisanz, Kyle Bittinger, Asker Brejnrod, Colin J Brislawn, C Titus Brown, Benjamin J Callahan, Andrés Mauricio Caraballo-Rodríguez, John Chase, Emily Cope, Ricardo Da Silva, Pieter C Dorrestein, Gavin M Douglas, Daniel M Durall, Claire Duvallet, Christian F Edwardson, Madeleine Ernst, Mehrbod Estaki, Jennifer Fouquier, Julia M Gauglitz, Deanna L Gibson, Antonio Gonzalez, Kestrel Gorlick, Jiarong Guo, Benjamin Hillmann, Susan Holmes, Hannes Holste, Curtis Huttenhower, Gavin Huttley, Stefan Janssen, Alan K Jarmusch, Lingjing Jiang, Benjamin Kaehler, Kyo Bin Kang, Christopher R Keefe, Paul Keim, Scott T Kelley, Dan Knights, Irina Koester, Tomasz Kosciolek, Jorden Kreps, Morgan GI Langille, Joslynn Lee, Ruth Ley, Yong-Xin Liu, Erikka Loftfield, Catherine Lozupone, Massoud Maher, Clarisse Marotz, Bryan D Martin, Daniel McDonald, Lauren J McIver, Alexey V Melnik, Jessica L Metcalf, Sydney C Morgan, Jamie Morton, Ahmad Turan Naimey, Jose A Navas-Molina, Louis Felix Nothias, Stephanie B Orchanian, Talima Pearson, Samuel L Peoples, Daniel Petras, Mary Lai Preuss, Elmar Pruesse, Lasse Buur Rasmussen, Adam Rivers, Michael S Robeson, Patrick Rosenthal, Nicola Segata, Michael Shaffer, Arron Shiffer, Rashmi Sinha, Se Jin Song, John R Spear, Austin D Swafford, Luke R Thompson, Pedro J Torres, Pauline Trinh, Anupriya Tripathi, Peter J Turnbaugh, Sabah Ul-Hasan, Justin JJ van der Hooft, Fernando Vargas, Yoshiki Vázquez-Baeza, Emily Vogtmann, Max von Hippel, William Walters, Yunhu Wan, Mingxun Wang, Jonathan Warren, Kyle C Weber, Chase HD Williamson, Amy D Willis, Zhenjiang Zech Xu, Jesse R Zaneveld, Yilong Zhang, Qiyun Zhu, Rob Knight and J Gregory Caporaso: Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2. (eprint) Nature Biotechnology 37 (2019)		Upload screenshot

qcat ??? missing short description for package qcat :-( https://github.com/nanoporetech/qcat Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package qcat Release Version Architectures bookworm 1.1.0-6 all forky 1.1.0-9 all bullseye 1.1.0-2 all sid 1.1.0-9 all trixie 1.1.0-7 all Popcon: 6 users (34 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
The package is enhanced by the following packages: qcat-examples Registry entries: Bioconda		Upload screenshot

quicktree ??? missing short description for package quicktree :-( https://github.com/khowe/quicktree/ Maintainer: Debian Med Packaging Team (Lance Lin)	Versions of package quicktree Release Version Architectures trixie 2.5-6 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x sid 2.5-6 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x forky 2.5-6 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bookworm 2.5-5 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x bullseye 2.5-5 amd64,arm64,armhf,i386 Popcon: 6 users (32 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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r-bioc-htsfilter ??? missing short description for package r-bioc-htsfilter :-( https://bioconductor.org/packages/HTSFilter/ Maintainer: Debian R Packages Maintainers (Charles Plessy)	Versions of package r-bioc-htsfilter Release Version Architectures trixie 1.46.0+dfsg-2 all bullseye 1.30.1+dfsg-1 all sid 1.46.0+dfsg-3 all bookworm 1.38.0+dfsg-2 all upstream 1.52.0 Popcon: 3 users (33 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
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r-bioc-limma ??? missing short description for package r-bioc-limma :-( https://bioconductor.org/packages/limma/ Maintainer: Debian R Packages Maintainers (Charles Plessy)	Versions of package r-bioc-limma Release Version Architectures bookworm 3.54.1+dfsg-1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x sid 3.62.2+dfsg-2 amd64,arm64,loong64,ppc64el,riscv64 bullseye 3.46.0+dfsg-1 amd64,arm64,armhf,i386 trixie 3.62.2+dfsg-1 amd64,arm64,ppc64el,riscv64,s390x upstream 3.68.3 Popcon: 128 users (146 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Gordon K. Smyth: Limma: linear models for microarray data. (eprint) :397-420 (2005) Registry entries: Bio.tools  SciCrunch  Bioconda		Upload screenshot

r-bioc-mutationalpatterns ??? missing short description for package r-bioc-mutationalpatterns :-( https://bioconductor.org/packages/MutationalPatterns/ Maintainer: Debian R Packages Maintainers (Charles Plessy)	Versions of package r-bioc-mutationalpatterns Release Version Architectures sid 3.16.0+dfsg-3 all bullseye 3.0.1+dfsg-2 all bookworm 3.8.1+dfsg-1 all trixie 3.16.0+dfsg-2 all upstream 3.22.0 Popcon: 2 users (33 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
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r-bioc-pwmenrich ??? missing short description for package r-bioc-pwmenrich :-( https://bioconductor.org/packages/PWMEnrich/ Maintainer: Debian R Packages Maintainers (Charles Plessy)	Versions of package r-bioc-pwmenrich Release Version Architectures bookworm 4.34.0-1 all bullseye 4.26.0-1 all sid 4.42.0-3 all trixie 4.42.0-2 all upstream 4.48.0 Popcon: 0 users (0 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
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r-bioc-rcpi ??? missing short description for package r-bioc-rcpi :-( https://bioconductor.org/packages/Rcpi/ Maintainer: Debian R Packages Maintainers (Charles Plessy)	Versions of package r-bioc-rcpi Release Version Architectures trixie 1.42.0+ds-2 all bookworm 1.34.0+ds-1 all sid 1.42.0+ds-3 all upstream 1.48.0 Popcon: 0 users (0 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Dong-Sheng Cao, Nan Xiao, Qing-Song Xu and Alex F. Chen: Rcpi: R/Bioconductor package to generate various descriptors of proteins, compounds and their interactions. Bioinformatics 31(2):279-281 (2015) Registry entries: Bio.tools  Bioconda		Upload screenshot

r-bioc-rgsepd ??? missing short description for package r-bioc-rgsepd :-( https://bioconductor.org/packages/rgsepd/ Maintainer: Debian R Packages Maintainers (Charles Plessy)	Versions of package r-bioc-rgsepd Release Version Architectures trixie 1.38.0-2 all bookworm 1.30.0-1 all sid 1.38.0-3 all bullseye 1.22.0-1 all upstream 1.44.0 Popcon: 0 users (0 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
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r-bioc-rsamtools ??? missing short description for package r-bioc-rsamtools :-( https://bioconductor.org/packages/Rsamtools/ Maintainer: Debian R Packages Maintainers (Charles Plessy)	Versions of package r-bioc-rsamtools Release Version Architectures trixie 2.22.0+dfsg-2 amd64,arm64,ppc64el,riscv64,s390x bookworm 2.14.0-1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x bullseye 2.6.0-1 amd64,arm64,armhf,i386 sid 2.22.0+dfsg-3 amd64,arm64,loong64,ppc64el,riscv64 upstream 2.28.0 Popcon: 42 users (40 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Registry entries: Bio.tools  Bioconda		Upload screenshot

r-bioc-tcgabiolinks ??? missing short description for package r-bioc-tcgabiolinks :-( https://bioconductor.org/packages/TCGAbiolinks/ Maintainer: Debian R Packages Maintainers (Charles Plessy)	Versions of package r-bioc-tcgabiolinks Release Version Architectures trixie 2.34.1+dfsg-1 all bullseye 2.18.0+dfsg-1 all bookworm 2.25.3+dfsg-1 all sid 2.34.1+dfsg-2 all upstream 2.40.0 Popcon: 0 users (0 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
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r-cran-alakazam ??? missing short description for package r-cran-alakazam :-( https://cran.r-project.org/package=alakazam Maintainer: Debian R Packages Maintainers (Charles Plessy)	Versions of package r-cran-alakazam Release Version Architectures trixie 1.3.0-1 amd64,arm64,ppc64el,riscv64,s390x bookworm 1.2.1-1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x sid 1.4.3-1 amd64,arm64,loong64,ppc64el,riscv64 experimental 1.3.0-2~0exp0 amd64,arm64,ppc64el,riscv64,s390x bullseye 1.1.0-1 amd64,arm64,armhf,i386 Popcon: 5 users (35 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Namita T. Gupta, Jason A. Vander Heiden, Mohamed Uduman, Daniel Gadala-Maria, Gur Yaari and Steven H. Kleinstein: Change-O: a toolkit for analyzing large-scale B cell immunoglobulin repertoire sequencing data. (eprint) 31(20):3356–3358 (2017)		Upload screenshot

r-cran-covid19us ??? missing short description for package r-cran-covid19us :-( https://cran.r-project.org/package=covid19us Maintainer: Debian R Packages Maintainers (Charles Plessy)	Versions of package r-cran-covid19us Release Version Architectures trixie 0.1.9-1 all sid 0.1.9-2 all bookworm 0.1.9-1 all bullseye 0.1.7-1 all Popcon: 1 users (2 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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r-cran-diagnosismed ??? missing short description for package r-cran-diagnosismed :-( https://cran.r-project.org/src/contrib/Archive/DiagnosisMed/ Maintainer: Debian R Packages Maintainers (Charles Plessy)	Versions of package r-cran-diagnosismed Release Version Architectures trixie 0.2.3-7 all sid 0.2.3-9 all forky 0.2.3-9 all bookworm 0.2.3-7 all bullseye 0.2.3-7 all Debtags of package r-cran-diagnosismed: devel lang:r field medicine interface commandline role program use analysing Popcon: 2 users (2 upd.)* Versions and Archs Edit Debtags	License: DFSG free Official Debian package Git Translate description
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r-cran-epi ??? missing short description for package r-cran-epi :-( https://cran.r-project.org/package=Epi Maintainer: Debian R Packages Maintainers (Charles Plessy)	Versions of package r-cran-epi Release Version Architectures sid 2.65-1 amd64,arm64,loong64,ppc64el,riscv64 bullseye 2.43-1 amd64,arm64,armhf,i386 bookworm 2.47-1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x trixie 2.59-1 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x Debtags of package r-cran-epi: field medicine interface commandline role program Popcon: 118 users (141 upd.)* Versions and Archs Edit Debtags	License: DFSG free Official Debian package Git Translate description
Please cite: Martyn Plummer and Bendix Carstensen: Lexis: An R Class for Epidemiological Studies with Long-Term Follow-Up. Journal of Statistical Software 38(5):1-12 (2011)		Upload screenshot

r-cran-epibasix ??? missing short description for package r-cran-epibasix :-( https://cran.r-project.org/package=epibasix Maintainer: Debian R Packages Maintainers (Charles Plessy)	Versions of package r-cran-epibasix Release Version Architectures bookworm 1.5-2 all forky 1.5-3 all bullseye 1.5-2 all trixie 1.5-2 all sid 1.5-3 all Debtags of package r-cran-epibasix: field medicine interface commandline role program Popcon: 2 users (2 upd.)* Versions and Archs Edit Debtags	License: DFSG free Official Debian package Git Translate description
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r-cran-epicalc ??? missing short description for package r-cran-epicalc :-( https://cran.r-project.org/package=epicalc Maintainer: Debian R Packages Maintainers (Charles Plessy)	Versions of package r-cran-epicalc Release Version Architectures forky 2.15.1.0-7 all bullseye 2.15.1.0-5 all bookworm 2.15.1.0-5 all trixie 2.15.1.0-5 all sid 2.15.1.0-7 all Debtags of package r-cran-epicalc: devel lang:r field medicine, statistics interface commandline role program Popcon: 3 users (2 upd.)* Versions and Archs Edit Debtags	License: DFSG free Official Debian package Git Translate description
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r-cran-epiestim ??? missing short description for package r-cran-epiestim :-( https://cran.r-project.org/package=EpiEstim Maintainer: Debian R Packages Maintainers (Charles Plessy)	Versions of package r-cran-epiestim Release Version Architectures bullseye 2.2-4+dfsg-1 all trixie 2.2-4+dfsg-1 all bookworm 2.2-4+dfsg-1 all sid 2.2-5+dfsg-1 all Popcon: 1 users (2 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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r-cran-epir ??? missing short description for package r-cran-epir :-( https://cran.r-project.org/package=epiR Maintainer: Debian R Packages Maintainers (Charles Plessy)	Versions of package r-cran-epir Release Version Architectures bookworm 2.0.57+dfsg-1 all sid 2.0.91+dfsg-1 all trixie 2.0.80+dfsg-1 all bullseye 2.0.19-1 all Debtags of package r-cran-epir: devel lang:r field medicine interface commandline role program use analysing Popcon: 122 users (143 upd.)* Versions and Archs Edit Debtags	License: DFSG free Official Debian package Git Translate description
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r-cran-epitools ??? missing short description for package r-cran-epitools :-( https://cran.r-project.org/package=epitools Maintainer: Debian R Packages Maintainers (Charles Plessy)	Versions of package r-cran-epitools Release Version Architectures forky 0.5-10.1-3 all sid 0.5-10.1-3 all bullseye 0.5-10.1-2 all trixie 0.5-10.1-2 all bookworm 0.5-10.1-2 all Debtags of package r-cran-epitools: field medicine interface commandline role program Popcon: 3 users (2 upd.)* Versions and Archs Edit Debtags	License: DFSG free Official Debian package Git Translate description
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r-cran-hms ??? missing short description for package r-cran-hms :-( https://cran.r-project.org/package=hms Maintainer: Debian R Packages Maintainers (Charles Plessy)	Versions of package r-cran-hms Release Version Architectures forky 1.1.4-1 all bullseye 1.0.0-1 all trixie 1.1.3-1 all bookworm 1.1.2-1 all sid 1.1.4-1 all Popcon: 249 users (169 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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r-cran-incidence ??? missing short description for package r-cran-incidence :-( https://cran.r-project.org/package=incidence Maintainer: Debian R Packages Maintainers (Charles Plessy)	Versions of package r-cran-incidence Release Version Architectures trixie 1.7.5-1 all forky 1.7.6-1 all bullseye 1.7.3-1 all bookworm 1.7.3-1 all sid 1.7.6-1 all Popcon: 1 users (2 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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r-cran-kernelheaping ??? missing short description for package r-cran-kernelheaping :-( https://cran.r-project.org/package=Kernelheaping Maintainer: Debian R Packages Maintainers (Charles Plessy)	Versions of package r-cran-kernelheaping Release Version Architectures bookworm 2.3.0-1 all trixie 2.3.0-1 all sid 2.3.0-2 all Popcon: 1 users (2 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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r-cran-lexrankr ??? missing short description for package r-cran-lexrankr :-( https://cran.r-project.org/package=lexRankr Maintainer: Debian R Packages Maintainers (Charles Plessy)	Versions of package r-cran-lexrankr Release Version Architectures bullseye 0.5.2-2 amd64,arm64,armhf,i386 bookworm 0.5.2-8 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x trixie 0.5.2-8 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x sid 0.5.2-8 armhf,i386,s390x sid 0.5.2-9 amd64,arm64,loong64,ppc64el,riscv64 Popcon: 3 users (4 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Güneş Erkan and Dragomir R. Radev: LexRank: Graph-based Lexical Centrality as Salience in Text Summarization. (eprint) Journal of Artific Intelligence Research 22:457-479 (2004)		Upload screenshot

r-cran-mediana ??? missing short description for package r-cran-mediana :-( https://cran.r-project.org/package=Mediana Maintainer: Debian R Packages Maintainers (Charles Plessy)	Versions of package r-cran-mediana Release Version Architectures bullseye 1.0.8-3 all forky 1.0.8-4 all sid 1.0.8-4 all trixie 1.0.8-3 all bookworm 1.0.8-3 all Popcon: 2 users (1 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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r-cran-msm ??? missing short description for package r-cran-msm :-( https://cran.r-project.org/package=msm Maintainer: Debian R Packages Maintainers (Charles Plessy)	Versions of package r-cran-msm Release Version Architectures bookworm 1.7-1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x bullseye 1.6.8-1 amd64,arm64,armhf,i386 sid 1.8.2-1 armhf,i386,s390x trixie 1.8.2-1 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x sid 1.8.2-2 amd64,arm64,loong64,ppc64el,riscv64 Debtags of package r-cran-msm: interface commandline role program Popcon: 129 users (151 upd.)* Versions and Archs Edit Debtags	License: DFSG free Official Debian package Git Translate description
Please cite: Christopher H. Jackson: Multi-State Models for Panel Data: The msm Package for R. Journal of Statistical Software 38(8):1-29 (2011)		Upload screenshot

r-cran-qtl ??? missing short description for package r-cran-qtl :-( https://cran.r-project.org/package=qtl Maintainer: Debian R Packages Maintainers (Charles Plessy)	Versions of package r-cran-qtl Release Version Architectures sid 1.74-1 amd64,arm64,loong64,ppc64el,riscv64 bookworm 1.58-1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x trixie 1.70-1 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x sid 1.70-1 armhf,i386,s390x bullseye 1.47-9-1 amd64,arm64,armhf,i386 Debtags of package r-cran-qtl: devel lang:r, library field biology, statistics role app-data suite gnu Popcon: 16 users (114 upd.)* Versions and Archs Edit Debtags	License: DFSG free Official Debian package Git Translate description
Please cite: Karl W. Broman, Hao Wu, Saunak Sen and Gary A. Churchill: R/qtl: QTL mapping in experimental crosses. (PubMed,eprint) Bioinformatics 19:889-890 (2003) Registry entries: Bio.tools  SciCrunch  Bioconda		Upload screenshot

r-cran-seroincidence ??? missing short description for package r-cran-seroincidence :-( https://cran.r-project.org/src/contrib/Archive/seroincidence/ Maintainer: Debian R Packages Maintainers (Charles Plessy)	Versions of package r-cran-seroincidence Release Version Architectures sid 2.0.0-5 all bullseye 2.0.0-2 all bookworm 2.0.0-3 all forky 2.0.0-5 all trixie 2.0.0-3 all Popcon: 2 users (2 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: PFM Teunis, JCH van Eijkeren, CW Ang, YTHP van Duynhoven, JB Simonsen, MA Strid and W van Pelt: Biomarker dynamics: estimating infection rates from serological data. (PubMed) Statistics in Medicine 31(20):2240–2248 (2012)		Upload screenshot

r-cran-sf ??? missing short description for package r-cran-sf :-( https://cran.r-project.org/package=sf Maintainer: Debian R Packages Maintainers (Charles Plessy)	Versions of package r-cran-sf Release Version Architectures trixie 1.0-19+dfsg-2 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x sid 1.1-1+dfsg-1 amd64,arm64,loong64,ppc64el,riscv64 bookworm 1.0-9+dfsg-1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x bullseye 0.9-7+dfsg-5 amd64,arm64,armhf,i386 Popcon: 185 users (186 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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r-cran-shazam ??? missing short description for package r-cran-shazam :-( https://cran.r-project.org/package=shazam Maintainer: Debian R Packages Maintainers (Charles Plessy)	Versions of package r-cran-shazam Release Version Architectures bullseye 1.0.2-1 all trixie 1.2.0-1 all bookworm 1.1.2-1 all sid 1.3.2-1 all Popcon: 3 users (34 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Namita T. Gupta, Jason A. Vander Heiden, Mohamed Uduman, Daniel Gadala-Maria, Gur Yaari and Steven H. Kleinstein: Change-O: a toolkit for analyzing large-scale B cell immunoglobulin repertoire sequencing data.. (PubMed,eprint) Bioinformatics 31(20):3356-3358 (2015) Registry entries: Bioconda		Upload screenshot

r-cran-sjplot ??? missing short description for package r-cran-sjplot :-( https://cran.r-project.org/package=sjPlot Maintainer: Debian R Packages Maintainers (Charles Plessy)	Versions of package r-cran-sjplot Release Version Architectures sid 2.9.0+dfsg-1 all bullseye 2.8.7-1 all bookworm 2.8.12+dfsg-1 all Popcon: 6 users (10 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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r-cran-spp ??? missing short description for package r-cran-spp :-( https://cran.r-project.org/package=spp Maintainer: Debian R Packages Maintainers (Andreas Tille)	Versions of package r-cran-spp Release Version Architectures trixie 1.16.0-2 amd64,arm64,ppc64el,riscv64,s390x bookworm 1.16.0-2 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x bullseye 1.16.0-2 amd64,arm64,armhf,i386 Popcon: 4 users (32 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Peter V Kharchenko, Michael Y Tolstorukov and Peter J Park: Design and analysis of ChIP-seq experiments for DNA-binding proteins. (PubMed) Nature biotechnology 26(12):1351–1359 (2008)		Upload screenshot

r-cran-stringi ??? missing short description for package r-cran-stringi :-( https://cran.r-project.org/package=stringi Maintainer: Debian R Packages Maintainers (Charles Plessy)	Versions of package r-cran-stringi Release Version Architectures bookworm 1.7.12-1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x forky 1.8.7-2 amd64,arm64,armhf,i386,ppc64el,riscv64,s390x trixie 1.8.4-1 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x bullseye 1.5.3-1 amd64,arm64,armhf,i386 sid 1.8.7-2 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x Popcon: 282 users (213 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Marek Gagolewski, Bartlomiej Tartanus, Oliver Keyes and Marcin Pawel Bujarski: R package stringi: Character string processing facilities. zenodo (2015)		Upload screenshot

r-cran-surveillance ??? missing short description for package r-cran-surveillance :-( https://cran.r-project.org/package=surveillance Maintainer: Debian R Packages Maintainers (Charles Plessy)	Versions of package r-cran-surveillance Release Version Architectures sid 1.24.1-1 armhf,i386,s390x bookworm 1.20.3-1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x sid 1.25.0-1 amd64,arm64,loong64,ppc64el,riscv64 bullseye 1.19.0-2 amd64,arm64,armhf,i386 trixie 1.24.1-1 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x Debtags of package r-cran-surveillance: field medicine interface commandline role program Popcon: 5 users (2 upd.)* Versions and Archs Edit Debtags	License: DFSG free Official Debian package Git Translate description
Please cite: Maëlle Salmon, Dirk Schumacher and Michael Höhle: Monitoring Count Time Series in R: Aberration Detection in Public Health Surveillance. Journal of Statistical Software 70(10):1-35 (2016)		Upload screenshot

r-cran-tigger ??? missing short description for package r-cran-tigger :-( https://cran.r-project.org/package=tigger Maintainer: Debian R Packages Maintainers (Charles Plessy)	Versions of package r-cran-tigger Release Version Architectures sid 1.1.3-1 all bullseye 1.0.0-1 all trixie 1.1.0-1 all bookworm 1.0.1-1 all Popcon: 3 users (34 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Namita T. Gupta, Jason A. Vander Heiden, Mohamed Uduman, Daniel Gadala-Maria, Gur Yaari and Steven H. Kleinstein: Change-O: a toolkit for analyzing large-scale B cell immunoglobulin repertoire sequencing data. (eprint) 31(20):3356–3358 (2017) Registry entries: Bioconda		Upload screenshot

r-other-ascat ??? missing short description for package r-other-ascat :-( https://github.com/Crick-CancerGenomics/ascat Maintainer: Debian R Packages Maintainers (Charles Plessy)	Versions of package r-other-ascat Release Version Architectures sid 3.2.0-1 all bullseye 2.5.2-3 all trixie 3.2.0-1 all bookworm 3.1.1-1 all Popcon: 3 users (33 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Peter Van Loo, Silje H Nordgard, Ole Christian Lingjærde, Hege G Russnes, Inga H Rye, Wei Sun, Victor J Weigman, Peter Marynen, Anders Zetterberg, Bjørn Naume, Charles M Perou, Anne-Lise Børresen-Dale and Vessela N Kristensen: Allele-specific Copy Number Analysis of Tumors. (PubMed) PNAS 107(39):16910-5 (2010) Registry entries: Bio.tools  Bioconda		Upload screenshot

ragout ??? missing short description for package ragout :-( https://github.com/fenderglass/Ragout/ Maintainer: Debian Med Packaging Team (Alexandre Detiste)	Versions of package ragout Release Version Architectures sid 2.3-6 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bullseye 2.3-2 amd64,arm64,armhf,i386 trixie 2.3-5 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x bookworm 2.3-4 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x forky 2.3-6 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x Popcon: 8 users (33 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Mikhail Kolmogorov, Joel Armstrong, Brian J. Raney, Ian Streeter, Matthew Dunn, Fengtang Yang, Duncan Odom, Paul Flicek, Thomas M. Keane, David Thybert, Benedict Paten and Son Pham: Chromosome assembly of large and complex genomes using multiple references. (PubMed,eprint) Genome Research 28(11):1720-1732 (2018) Registry entries: Bioconda		Upload screenshot

readucks ??? missing short description for package readucks :-( https://github.com/artic-network/readucks Maintainer: Debian Med Packaging Team (Andreas Tille)	Versions of package readucks Release Version Architectures bookworm 0.0.3-5 all bullseye 0.0.3-2 all sid 0.0.3-8 all forky 0.0.3-8 all Popcon: 0 users (0 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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recan ??? missing short description for package recan :-( https://github.com/babinyurii/recan Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package recan Release Version Architectures bullseye 0.1.2-2 all bookworm 0.1.5+dfsg-2 all sid 0.5+dfsg-1 all forky 0.5+dfsg-1 all trixie 0.5+dfsg-1 all Popcon: 2 users (36 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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rna-star ??? missing short description for package rna-star :-( https://github.com/alexdobin/STAR/ Maintainer: Debian Med Packaging Team (Michael R. Crusoe)	Versions of package rna-star Release Version Architectures forky 2.7.11b+dfsg-2 amd64,arm64,loong64,ppc64el,riscv64 bullseye 2.7.8a+dfsg-2 amd64,arm64 bookworm 2.7.10b+dfsg-2 amd64,arm64,mips64el,ppc64el trixie 2.7.11b+dfsg-2 amd64,arm64,ppc64el,riscv64 sid 2.7.11b+dfsg-2 amd64,arm64,loong64,ppc64el,riscv64 Popcon: 13 users (38 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
The package is enhanced by the following packages: multiqc Please cite: Alexander Dobin, Carrie A. Davis, Felix Schlesinger, Jorg Drenkow, Chris Zaleski, Sonali Jha, Philippe Batut, Mark Chaisson and Thomas R. Gingeras: STAR: ultrafast universal RNA-seq aligner. (PubMed,eprint) Bioinformatics 29(1):15-21 (2012) Registry entries: Bio.tools  SciCrunch  Bioconda  Topics: Sequence analysis		Upload screenshot

rsem ??? missing short description for package rsem :-( https://deweylab.github.io/RSEM/ Maintainer: Debian Med Packaging Team (Santiago Vila)	Versions of package rsem Release Version Architectures forky 1.3.3+dfsg-4 amd64,arm64,ppc64el,riscv64,s390x sid 1.3.3+dfsg-4 amd64,arm64,loong64,ppc64el,riscv64,s390x bookworm 1.3.3+dfsg-2 amd64,arm64,mips64el,ppc64el,s390x bullseye 1.3.3+dfsg-1 amd64,arm64 trixie 1.3.3+dfsg-3 amd64,arm64,ppc64el,riscv64,s390x Popcon: 7 users (35 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
The package is enhanced by the following packages: multiqc Please cite: Bo Li and Colin Dewey: RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome. (PubMed,eprint) BMC Bioinformatics 12(1):323 (2011) Registry entries: Bio.tools  SciCrunch  Bioconda		Upload screenshot

ruby-bio ??? missing short description for package ruby-bio :-( https://bioruby.org/ Maintainer: Debian Ruby Team (Nilesh Patra)	Versions of package ruby-bio Release Version Architectures sid 2.0.6-1 all bookworm 2.0.4-1 all trixie 2.0.5-1 all forky 2.0.6-1 all bullseye 2.0.1-2 all Popcon: 5 users (33 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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salmon ??? missing short description for package salmon :-( https://github.com/COMBINE-lab/salmon Maintainer: Debian Med Packaging Team (Andreas Tille)	Versions of package salmon Release Version Architectures forky 1.10.3+ds1-3 amd64,arm64 sid 1.10.3+ds1-3 amd64,arm64 bullseye 1.4.0+ds1-1 amd64,arm64 bookworm 1.10.1+ds1-1 amd64,arm64 trixie 1.10.2+ds1-1 amd64,arm64 upstream 1.11.4 Popcon: 6 users (37 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
The package is enhanced by the following packages: multiqc Please cite: Rob Patro, Geet Duggal, Michael I Love, Rafael A Irizarry and Carl Kingsford: Salmon provides fast and bias-aware quantification of transcript expression. (eprint) Nature Methods 14(4):417-419 (2017) Registry entries: Bio.tools  SciCrunch  Bioconda		Upload screenshot

samblaster ??? missing short description for package samblaster :-( https://github.com/GregoryFaust/samblaster Maintainer: Debian Med Packaging Team (Andreas Tille)	Versions of package samblaster Release Version Architectures bullseye 0.1.26-1 amd64,arm64,armhf,i386 forky 0.1.26-4 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bookworm 0.1.26-4 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x trixie 0.1.26-4 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x sid 0.1.26-4 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x Popcon: 6 users (35 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
The package is enhanced by the following packages: multiqc Please cite: Gregory G. Faust and Ira M. Hall: SAMBLASTER: fast duplicate marking and structural variant read extraction. (PubMed,eprint) Bioinformatics 30(17):2503-2505 (2014) Registry entries: Bio.tools  SciCrunch  Bioconda		Upload screenshot

samclip ??? missing short description for package samclip :-( https://github.com/tseemann/samclip Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package samclip Release Version Architectures trixie 0.4.0-4 all bullseye 0.4.0-2 all bookworm 0.4.0-4 all sid 0.4.0-4 all forky 0.4.0-4 all Popcon: 5 users (33 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Registry entries: Bioconda		Upload screenshot

samtools ??? missing short description for package samtools :-( https://www.htslib.org/ Maintainer: Debian Med Packaging Team (Steffen Moeller)	Versions of package samtools Release Version Architectures sid 1.22.1-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bookworm 1.16.1-1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x bullseye 1.11-1 amd64,arm64,armhf,i386 trixie 1.21-1 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x forky 1.22.1-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x upstream 1.23.1 Debtags of package samtools: field biology interface commandline network client role program scope utility uitoolkit ncurses use analysing, calculating, filtering works-with biological-sequence Popcon: 56 users (58 upd.)* Newer upstream! Edit Debtags	License: DFSG free Official Debian package Git Translate description
The package is enhanced by the following packages: libbio-samtools-perl multiqc Please cite: Heng Li, Bob Handsaker, Alec Wysoker, Tim Fennell, Jue Ruan, Nils Homer, Gabor Marth, Goncalo Abecasis, Richard Durbin and 1000 Genome Project Data Processing Subgroup: The Sequence Alignment/Map (SAM) Format and SAMtools. (PubMed,eprint) Bioinformatics 25(16):2078-2079 (2009) Registry entries: Bio.tools  SciCrunch  Bioconda

scrappie ??? missing short description for package scrappie :-( https://github.com/nanoporetech/scrappie Maintainer: Debian Med Packaging Team (Nilesh Patra)	Versions of package scrappie Release Version Architectures sid 1.4.2-9 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bullseye 1.4.2-7 amd64,arm64,armhf,i386 trixie 1.4.2-8 amd64,arm64,armhf,i386,ppc64el,riscv64,s390x forky 1.4.2-9 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bookworm 1.4.2-8 amd64,arm64,armhf,i386,mips64el,ppc64el,s390x Popcon: 9 users (33 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Ryan R. Wick, Louise M. Judd and Kathryn E. Holt: Performance of neural network basecalling tools for Oxford Nanopore sequencing.. (eprint) Genome Biol. 20:129 (2019) Registry entries: Bioconda		Upload screenshot

sepp ??? missing short description for package sepp :-( https://github.com/smirarab/sepp/ Maintainer: Debian Med Packaging Team (Pierre Gruet)	Versions of package sepp Release Version Architectures bullseye 4.3.10+dfsg-5 amd64 sid 4.5.5+dfsg-2 amd64,arm64 upstream 4.5.6 Popcon: 0 users (0 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Registry entries: Bioconda		Upload screenshot

seqkit ??? missing short description for package seqkit :-( https://github.com/shenwei356/seqkit Maintainer: Debian Med Packaging Team (Nilesh Patra)	Versions of package seqkit Release Version Architectures forky 2.10.1+ds-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bullseye 0.15.0+ds-2 amd64,arm64,armhf,i386 trixie 2.9.0+ds-1 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x sid 2.10.1+ds-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bookworm 2.3.1+ds-1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x upstream 2.13.0 Popcon: 12 users (39 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Wei Shen, Shuai Le, Yan Li and Fuquan Hu: SeqKit: A Cross-Platform and Ultrafast Toolkit for FASTA/Q File Manipulation. (PubMed,eprint) PlosOne 11(10):e0163962 (2016) Registry entries: Bio.tools  Bioconda		Upload screenshot

seqmagick ??? missing short description for package seqmagick :-( https://github.com/fhcrc/seqmagick/ Maintainer: Debian Med Packaging Team (Santiago Vila)	Versions of package seqmagick Release Version Architectures bullseye 0.8.4-1 all sid 0.8.6-4 all trixie 0.8.6-3 all bookworm 0.8.4-3 all forky 0.8.6-4 all Popcon: 8 users (32 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Registry entries: Bioconda		Upload screenshot

shapeit4 ??? missing short description for package shapeit4 :-( https://odelaneau.github.io/shapeit4/ Maintainer: Debian Med Packaging Team (Dylan Aïssi)	Versions of package shapeit4 Release Version Architectures sid 4.2.2+dfsg-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bullseye 4.2.0+dfsg-1 amd64,arm64,armhf,i386 bookworm 4.2.2+dfsg-1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x trixie 4.2.2+dfsg-1 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x forky 4.2.2+dfsg-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x Popcon: 0 users (0 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
The package is enhanced by the following packages: shapeit4-example Please cite: Olivier Delaneau, Jean-Francois Zagury, Matthew R Robinson, Jonathan L Marchini and Emmanouil T Dermitzakis: Accurate, scalable and integrative haplotype estimation. (eprint) Nature Communications (2019) Registry entries: Bioconda		Upload screenshot

shiny-server ??? missing short description for package shiny-server :-( https://www.rstudio.com/products/shiny/shiny-server/ Maintainer: Debian Science Maintainers (Alexandre Detiste)	Versions of package shiny-server Release Version Architectures sid 1.5.20.1002-4 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bookworm 1.5.20.1002-1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x trixie 1.5.20.1002-4 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x upstream 1.5.23.1030 Popcon: 64 users (0 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
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shovill ??? missing short description for package shovill :-( https://github.com/tseemann/shovill Maintainer: Debian Med Packaging Team (Andreas Tille)	Versions of package shovill Release Version Architectures forky 1.1.0-11 amd64 sid 1.1.0-11 amd64 trixie 1.1.0-9 amd64 bookworm 1.1.0-9 amd64 bullseye 1.1.0-4 amd64 upstream 1.4.2 Popcon: 3 users (32 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
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smrtanalysis ??? missing short description for package smrtanalysis :-( https://www.pacb.com/products-and-services/analytical-software/smrt-analysis/ Maintainer: Debian Med Packaging Team (Andreas Tille)	Versions of package smrtanalysis Release Version Architectures trixie 0~20210112 all sid 0~20210112 all bullseye 0~20210111 all bookworm 0~20210112 all Popcon: 0 users (0 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Registry entries: Bio.tools  SciCrunch		Upload screenshot

snakemake ??? missing short description for package snakemake :-( https://snakemake.readthedocs.io/ Maintainer: Debian Med Packaging Team (Michael R. Crusoe)	Versions of package snakemake Release Version Architectures sid 7.32.4-11 all bullseye 5.24.1-2 all bookworm 7.21.0-1 all trixie 7.32.4-7 all forky 7.32.4-11 all upstream 9.21.0 Popcon: 49 users (134 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Johannes Köster and Sven Rahmann: Snakemake-a scalable bioinformatics workflow engine. Bioinformatics (2012) Registry entries: Bio.tools  SciCrunch  Bioconda		Upload screenshot

snpeff ??? missing short description for package snpeff :-( https://pcingola.github.io/SnpEff/ Maintainer: Debian Med Packaging Team (Alexandre Detiste)	Versions of package snpeff Release Version Architectures bookworm 5.1+d+dfsg-3 all trixie 5.2.f+dfsg-1 all forky 5.4.b+dfsg-2 all sid 5.4.b+dfsg-2 all upstream 5.4c Popcon: 7 users (36 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
The package is enhanced by the following packages: multiqc Please cite: Pablo Cingolani, Adrian Platts, Le Lily Wang, Melissa Coon, Tung Nguyen, Luan Wang, Susan J. Land, Douglas M. Ruden and Xiangyi Lu: A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w^1118; iso-2; iso-3. (PubMed,eprint) Fly 6(2):80-92 (2012) Registry entries: Bio.tools  SciCrunch  Bioconda		Upload screenshot

snpsift ??? missing short description for package snpsift :-( https://pcingola.github.io/SnpEff/ss_introduction/ Maintainer: Debian Med Packaging Team (Pierre Gruet)	Versions of package snpsift Release Version Architectures forky 5.4.b+dfsg-1 all bookworm 5.1+dfsg2-2 all sid 5.4.b+dfsg-1 all trixie 5.2.e+dfsg-2 all Popcon: 5 users (35 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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spades ??? missing short description for package spades :-( https://github.com/ablab/spades Maintainer: Debian Med Packaging Team (Andreas Tille)	Versions of package spades Release Version Architectures sid 4.0.0+really3.15.5+dfsg-3 amd64 trixie 4.0.0+really3.15.5+dfsg-1 amd64 forky 4.0.0+really3.15.5+dfsg-3 amd64 bullseye 3.13.1+dfsg-2 amd64 bookworm 3.15.5+dfsg-2 amd64 upstream 4.2.0 Popcon: 6 users (35 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Anton Bankevich, Sergey Nurk, Dmitry Antipov, Alexey A. Gurevich, Mikhail Dvorkin, Alexander S. Kulikov, Valery M. Lesin, Sergey I. Nikolenko, Son Pham, Andrey D. Prjibelski, Alexey V. Pyshkin, Alexander V. Sirotkin, Nikolay Vyahhi, Glenn Tesler, Max A. Alekseyev and Pavel A. Pevzner: SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing. (PubMed,eprint) Journal of Computational Biology 19(5):455-477 (2012) Registry entries: Bio.tools  SciCrunch  Bioconda		Upload screenshot

spaln ??? missing short description for package spaln :-( https://github.com/ogotoh/spaln Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package spaln Release Version Architectures bookworm 2.4.13f+dfsg-1 amd64,arm64,mips64el,ppc64el,s390x forky 3.0.7+dfsg-1 amd64,arm64,loong64,ppc64el,riscv64,s390x sid 3.0.7+dfsg-1 amd64,arm64,loong64,ppc64el,riscv64,s390x trixie 3.0.2+dfsg-2 amd64,arm64,ppc64el,riscv64,s390x bullseye 2.4.1+dfsg-3 amd64,arm64,armhf,i386 Popcon: 7 users (33 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Osamu Gotoh: A space-efficient and accurate method for mapping and aligning cDNA sequences onto genomic sequence. (PubMed) Nucleic Acids Res. 36(8):2630-8 (2008) Registry entries: Bioconda		Upload screenshot

staden-io-lib-utils ??? missing short description for package staden-io-lib-utils :-( https://github.com/jkbonfield/io_lib Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package staden-io-lib-utils Release Version Architectures forky 1.15.1-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bookworm 1.14.15-1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x bullseye 1.14.13-4 amd64,arm64,armhf,i386 trixie 1.15.0-1.1 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x sid 1.15.1-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x upstream 1-16-0 Debtags of package staden-io-lib-utils: biology nuceleic-acids, peptidic field biology, biology:bioinformatics interface commandline role program scope utility use analysing Popcon: 10 users (36 upd.)* Newer upstream! Edit Debtags	License: DFSG free Official Debian package Git Translate description
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stringtie ??? missing short description for package stringtie :-( https://ccb.jhu.edu/software/stringtie/ Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package stringtie Release Version Architectures sid 3.0.3+ds-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x trixie 2.2.1+ds-3 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x bookworm 2.2.1+ds-2 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x bullseye 2.1.4+ds-4 amd64,arm64,armhf,i386 forky 3.0.3+ds-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x Popcon: 6 users (34 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Mihaela Pertea, Geo M. Pertea, Corina .M. Antonescu, Tsung-Cheng Chang, Joshua T. Mendell and Steven L. Salzberg: StringTie enables improved reconstruction of a transcriptome from RNA-seq reads. Nature Biotechnology 33:290–295 (2015) Registry entries: Bio.tools  SciCrunch  Bioconda		Upload screenshot

sumaclust ??? missing short description for package sumaclust :-( http://metabarcoding.org/sumaclust Maintainer: Debian Med Packaging Team (Pierre Gruet)	Versions of package sumaclust Release Version Architectures forky 1.0.36+ds-4 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bullseye 1.0.36+ds-1 amd64,arm64,armhf,i386 trixie 1.0.36+ds-4 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x bookworm 1.0.36+ds-2 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x sid 1.0.36+ds-4 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x Popcon: 5 users (35 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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texlive-science ??? missing short description for package texlive-science :-( http://www.tug.org/texlive/ Maintainer: Debian TeX Task Force (Hilmar Preuße)	Versions of package texlive-science Release Version Architectures sid 2026.20260328-5 all bullseye 2020.20210202-3 all bookworm 2022.20230122-4 all trixie 2024.20250309-2 all forky 2026.20260328-5 all Debtags of package texlive-science: field biology, chemistry, electronics, mathematics, physics made-of tex role app-data science publishing use typesetting works-with graphs, text works-with-format tex Popcon: 2520 users (916 upd.)* Versions and Archs Edit Debtags	License: DFSG free Official Debian package Git Translate description
		Other screenshots of package texlive-science Version URL 2025.20260124 https://screenshots.debian.net/screenshot/texlive-science/29131 2025.20260124 https://screenshots.debian.net/screenshot/texlive-science/29133

thesias ??? missing short description for package thesias :-( https://github.com/daissi/thesias Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package thesias Release Version Architectures trixie 3.1.1-3 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x bookworm 3.1.1-1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x bullseye 3.1.1-1 amd64,arm64,armhf,i386 sid 3.1.1-4 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x forky 3.1.1-4 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x Popcon: 6 users (33 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: David-Alexandre Trégouët and Valérie Garelle: "A new JAVA interface implementation of THESIAS: testing haplotype effects in association studies". (eprint) Bioinformatics 23(8):1038-1039 (2007) Registry entries: Bio.tools  SciCrunch  Bioconda

tiddit ??? missing short description for package tiddit :-( https://github.com/SciLifeLab/TIDDIT Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package tiddit Release Version Architectures bullseye 2.12.0+dfsg-3 amd64,arm64,armhf,i386 bookworm 3.5.2+dfsg-1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el sid 3.6.1+dfsg-2 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64 trixie 3.6.1+dfsg-2 amd64,arm64,armel,armhf,i386,ppc64el,riscv64 forky 3.6.1+dfsg-2 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64 upstream 3.9.5 Popcon: 6 users (34 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
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tipp ??? missing short description for package tipp :-( https://github.com/TeraTrees/TIPP Maintainer: Debian Med Packaging Team (Santiago Vila)	Versions of package tipp Release Version Architectures sid 1.0+dfsg-4 amd64,arm64 Popcon: users ( upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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tnseq-transit ??? missing short description for package tnseq-transit :-( http://saclab.tamu.edu/essentiality/transit/ Maintainer: Debian Med Packaging Team (Alexandre Detiste)	Versions of package tnseq-transit Release Version Architectures bullseye 3.2.1-1 amd64,arm64,armhf,i386 sid 3.3.12-1 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x trixie 3.3.12-1 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x bookworm 3.2.7-1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x upstream 3.3.20 Popcon: 5 users (31 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Michael A. DeJesus, Chaitra Ambadipudi, Richard Baker, Christopher Sassetti and Thomas R. Ioerger: TRANSIT - A Software Tool for Himar1 TnSeq Analysis. (PubMed,eprint) PLOS 11(10):e1004401 (2015) Registry entries: Bio.tools  Bioconda		Upload screenshot

toil ??? missing short description for package toil :-( https://github.com/DataBiosphere/toil Maintainer: Debian Med Packaging Team (Michael R. Crusoe)	Versions of package toil Release Version Architectures trixie 8.0.0-5+deb13u1 all bullseye 5.2.0-5 all bookworm 5.9.2-2+deb12u1 all sid 9.4.1-1 all forky 9.4.1-1 all Popcon: 24 users (209 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: John Vivian, Arjun Arkal Rao, Frank Austin Nothaft, Christopher Ketchum, Joel Armstrong, Adam Novak, Jacob Pfeil, Jake Narkizian Alden D. Deran, Audrey Musselman-Brown, Hannes Schmidt, Peter Amstutz, Brian Craft, Mary Goldman, Kate Rosenbloom, Melissa Cline, Brian O'Connor, Megan Hanna, Chet Birger, W. James Kent David A. Patterson, Anthony D. Joseph, Jingchun Zhu, Sasha Zaranek, Gad Getz, David Haussler and Benedict Paten: Toil enables reproducible, open source, big biomedical data analyses. Nature Biotechnology 35(4):314–316 (2017) Registry entries: Bioconda		Upload screenshot

tombo ??? missing short description for package tombo :-( https://github.com/nanoporetech/tombo Maintainer: Debian Med Packaging Team (Andreas Tille)	Versions of package tombo Release Version Architectures sid 1.5.1-9 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x forky 1.5.1-9 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x trixie 1.5.1-7 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x bookworm 1.5.1-4 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x bullseye 1.5.1-2 amd64,arm64,armhf,i386 Popcon: 5 users (37 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Marcus Stoiber, Joshua Quick, Rob Egan, Ji Eun Lee, Susan Celniker, Robert K. Neely, Nicholas Loman, Len A Pennacchio and James Brown: De novo Identification of DNA Modifications Enabled by Genome-Guided Nanopore Signal Processing. (eprint) bioRxiv (2016) Registry entries: Bioconda		Upload screenshot

tophat-recondition ??? missing short description for package tophat-recondition :-( https://github.com/cbrueffer/tophat-recondition Maintainer: Debian Med Packaging Team (Steffen Moeller)	Versions of package tophat-recondition Release Version Architectures sid 1.4-3 all trixie 1.4-3 all bookworm 1.4-3 all forky 1.4-3 all bullseye 1.4-3 all Popcon: 6 users (32 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Christian Brueffer and Lao H. Saal: A post-processor for TopHat unmapped reads. Bioinformatics 17(1):199 (2016) Registry entries: Bio.tools  Bioconda		Upload screenshot

trinculo ??? missing short description for package trinculo :-( https://sourceforge.net/projects/trinculo/ Maintainer: Debian Med Packaging Team (Nilesh Patra)	Versions of package trinculo Release Version Architectures bookworm 0.96+dfsg-4 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x sid 0.96+dfsg-5 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x forky 0.96+dfsg-5 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x trixie 0.96+dfsg-4 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x bullseye 0.96+dfsg-3 amd64,arm64,armhf,i386 Popcon: 0 users (0 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Luke Jostins and Gilean McVean: Trinculo: Bayesian and frequentist multinomial logistic regression for genome-wide association studies of multi-category phenotypes. (PubMed) Bioinformatics 32(12):1898-1900 (2016)		Upload screenshot

umap-learn ??? missing short description for package umap-learn :-( https://github.com/lmcinnes/umap Maintainer: Debian Med Packaging Team (Michael R. Crusoe)	Versions of package umap-learn Release Version Architectures bookworm 0.5.3+dfsg-2 all bullseye 0.4.5+dfsg-2 all sid 0.5.9.post2+dfsg-1 all upstream 0.5.12 Popcon: 1 users (1 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Leland McInnes, John Healy and James Melville: UMAP: Uniform Manifold Approximation and Projection for Dimension Reduction. (eprint) arXiv (2018)		Upload screenshot

umis ??? missing short description for package umis :-( https://github.com/vals/umis Maintainer: Debian Med Packaging Team (Andreas Tille)	Versions of package umis Release Version Architectures bullseye 1.0.7-1 amd64,arm64,armhf,i386 sid 1.0.9-2 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64 bookworm 1.0.8-3 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el Popcon: 1 users (0 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Valentine Svensson, Kedar Nath Natarajan, Lam-Ha Ly, Ricardo J Miragaia, Charlotte Labalette, Iain C Macaulay, Ana Cvejic and Sarah A Teichmann: Power analysis of single-cell RNA-sequencing experiments. (PubMed) Nature methods 14:381–387 (2017) Registry entries: Bioconda		Upload screenshot

uncalled ??? missing short description for package uncalled :-( https://github.com/skovaka/UNCALLED Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package uncalled Release Version Architectures bullseye 2.2+ds-1 amd64,arm64,armhf,i386 sid 2.3+ds-3 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x forky 2.3+ds-3 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x trixie 2.3+ds-3 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x bookworm 2.2+ds1-1 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x Popcon: 6 users (33 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Sam Kovaka, Yunfan Fan, Bohan Ni, Winston Timp and Michael C. Schatz: Targeted nanopore sequencing by real-time mapping of raw electrical signal with UNCALLED. (eprint) Nature Biotechnology (2020)		Upload screenshot

unicycler ??? missing short description for package unicycler :-( https://github.com/rrwick/Unicycler Maintainer: Debian Med Packaging Team (Andreas Tille)	Versions of package unicycler Release Version Architectures trixie 0.5.1+dfsg-3 amd64 bookworm 0.5.0+dfsg-1 amd64 sid 0.5.1+dfsg-4 amd64 bullseye 0.4.8+dfsg-2 amd64 Popcon: 6 users (32 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Ryan R. Wick, Louise M. Judd, Claire L. Gorrie and Kathryn E. Holt: Unicycler: Resolving bacterial genome assemblies from short and long sequencing reads. (PubMed,eprint) PLOS Computational Biology 13(6):e1005595 (2017) Registry entries: Bio.tools  Bioconda		Upload screenshot

vg ??? missing short description for package vg :-( https://github.com/vgteam/vg#vg Maintainer: Debian Med Packaging Team (Bastian Germann)	Versions of package vg Release Version Architectures sid 1.59.0+ds-0.1 amd64,arm64 bullseye 1.30.0+ds-1 amd64 upstream 1.74.1 Popcon: 0 users (0 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Erik Garrison, Jouni Sirén, Adam M Novak, Glenn Hickey, Jordan M Eizenga, Eric T Dawson, William Jones, Shilpa Garg, Charles Markello, Michael F Lin, Benedict Paten and Richard Durbin: Variation graph toolkit improves read mapping by representing genetic variation in the reference. (PubMed) Nature Biotechnology 36(9):875–879 (2018) Registry entries: Bioconda		Upload screenshot

vsearch ??? missing short description for package vsearch :-( https://github.com/torognes/vsearch/ Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package vsearch Release Version Architectures forky 2.30.4-1 amd64,arm64,loong64,ppc64el,riscv64 bullseye 2.15.2-3 amd64,arm64 sid 2.30.4-1 amd64,arm64,loong64,ppc64el,riscv64 bookworm 2.22.1-1 amd64,arm64,ppc64el trixie 2.30.0-1 amd64,arm64,ppc64el,riscv64 upstream 2.31.0 Popcon: 6 users (37 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
The package is enhanced by the following packages: vsearch-examples Please cite: Torbjørn Rognes, Tomáš Flouri, Ben Nichols, Christopher Quince and Frédéric Mahé: VSEARCH: a versatile open source tool for metagenomics. (eprint) PeerJ 4:e2584 Registry entries: Bio.tools  Bioconda		Upload screenshot

vt ??? missing short description for package vt :-( https://genome.sph.umich.edu/wiki/Vt Maintainer: Debian Med Packaging Team (Antoni Villalonga)	Versions of package vt Release Version Architectures forky 0.57721+ds-3 amd64,arm64,armhf,i386,ppc64el,riscv64,s390x trixie 0.57721+ds-3 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x bookworm 0.57721+ds-3 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x bullseye 0.57721+ds-3 amd64,arm64,armhf,i386 sid 0.57721+ds-3 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x Popcon: 6 users (34 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
The package is enhanced by the following packages: vt-examples Please cite: Adrian Tan, Gonçalo R. Abecasis and Hyun Min Kang: Unified representation of genetic variants. (PubMed,eprint) Bioinformatics 31(13):2202–2204 (2015) Registry entries: Bio.tools  Bioconda		Upload screenshot

workrave ??? missing short description for package workrave :-( https://workrave.org/ Maintainer: Francois Marier	Versions of package workrave Release Version Architectures trixie 1.10.53-2 amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x sid 1.10.54-3 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x bullseye 1.10.44-7.1 amd64,arm64,armhf,i386 bookworm 1.10.50-3 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x forky 1.10.54-3 amd64,arm64,armhf,i386,ppc64el,riscv64,s390x Debtags of package workrave: hardware input interface x11 role program scope utility suite gnome uitoolkit gtk use monitor x11 applet, application Popcon: 123 users (10 upd.)* Versions and Archs Edit Debtags	License: DFSG free Official Debian package Git Translate description
		Other screenshots of package workrave Version URL 1.10.44-7 https://screenshots.debian.net/screenshot/workrave/19871 1.9.4-1 https://screenshots.debian.net/screenshot/workrave/7169

wtdbg2 ??? missing short description for package wtdbg2 :-( https://github.com/ruanjue/wtdbg2 Maintainer: Debian Med Packaging Team (Étienne Mollier)	Versions of package wtdbg2 Release Version Architectures forky 2.5-11 amd64 bullseye 2.5-7 amd64,arm64,armhf,i386 bookworm 2.5-9 amd64 trixie 2.5-10 amd64 sid 2.5-11 amd64 Popcon: 0 users (0 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
The package is enhanced by the following packages: wtdbg2-examples Please cite: Jue Ruan and Heng Li: Fast and accurate long-read assembly with wtdbg2. (PubMed,eprint) naturemethods 17(2):155-158 (2020)		Upload screenshot

yanagiba ??? missing short description for package yanagiba :-( https://github.com/Adamtaranto/Yanagiba Maintainer: Debian Med Packaging Team (Nilesh Patra)	Versions of package yanagiba Release Version Architectures sid 1.0.0-6 all bullseye 1.0.0-2 all bookworm 1.0.0-5 all trixie 1.0.0-5 all forky 1.0.0-6 all Popcon: 6 users (32 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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yanosim ??? missing short description for package yanosim :-( https://github.com/bartongroup/yanosim Maintainer: Debian Med Packaging Team (Andreas Tille)	Versions of package yanosim Release Version Architectures bullseye 0.1-3 amd64,arm64,armhf,i386 trixie 0.1-6 amd64,arm64,armel,armhf,i386,ppc64el,riscv64 forky 0.1-8 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64 sid 0.1-8 amd64,arm64,armhf,i386,loong64,ppc64el,riscv64 bookworm 0.1-5 amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el Popcon: 5 users (33 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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Official Debian packages with lower relevance

libsimde-dev ??? missing short description for package libsimde-dev :-( https://github.com/simd-everywhere/simde Maintainer: Debian Med Packaging Team (Michael R. Crusoe)	Versions of package libsimde-dev Release Version Architectures experimental 0.8.2~rc1-1 amd64,arm64,armhf,i386,ppc64el,riscv64,s390x bullseye 0.7.2-4 all sid 0.8.4~rc3-5 all trixie 0.8.2-3 all forky 0.8.4~rc3-5 all bookworm 0.7.4~rc2-2 all Popcon: 21 users (36 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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python3-anndata ??? missing short description for package python3-anndata :-( https://github.com/theislab/anndata Maintainer: Debian Med Packaging Team (Michael R. Crusoe)	Versions of package python3-anndata Release Version Architectures sid 0.12.6-1 all bookworm 0.8.0-4 all bullseye 0.7.5+ds-3 all upstream 0.13.0rc1 Popcon: 1 users (0 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: F. Alexander Wolf, Philipp Angerer and Fabian J. Theis: SCANPY: large-scale single-cell gene expression data analysis.. (PubMed) Genome Biol. 19:15 (2018) Registry entries: Bioconda		Upload screenshot

python3-mmtf ??? missing short description for package python3-mmtf :-( https://github.com/rcsb/mmtf-python Maintainer: Debichem Team (Andrius Merkys)	Versions of package python3-mmtf Release Version Architectures bookworm 1.1.3-1 all bullseye 1.1.2-3 all sid 1.1.3-1 all forky 1.1.3-1 all trixie 1.1.3-1 all Popcon: 1 users (0 upd.)* Versions and Archs Go tagging	License: DFSG free Official Debian package Git Translate description
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r-bioc-rsubread ??? missing short description for package r-bioc-rsubread :-( https://bioconductor.org/packages/Rsubread/ Maintainer: Debian R Packages Maintainers (Charles Plessy)	Versions of package r-bioc-rsubread Release Version Architectures trixie 2.20.0-2 amd64,arm64,ppc64el,riscv64,s390x bullseye 2.4.2-1 amd64,arm64 bookworm 2.12.2-1 amd64,arm64,mips64el,ppc64el,s390x sid 2.20.0-3 amd64,arm64,loong64,ppc64el,riscv64 upstream 2.26.0 Popcon: 31 users (0 upd.)* Newer upstream! Go tagging	License: DFSG free Official Debian package Git Translate description
Please cite: Yang Liao, Gordon K Smyth and Wei Shi: The R package Rsubread is easier, faster, cheaper and better for alignment and quantification of RNA sequencing reads,. (eprint) Nucleic Acids Research 47(8):e47 (2019) Registry entries: Bio.tools  Bioconda		Upload screenshot

Debian packages in contrib or non-free

python3-seqcluster ??? missing short description for package python3-seqcluster :-( https://github.com/lpantano/seqcluster Maintainer: Debian Med Packaging Team (Alexandre Detiste)	Versions of package python3-seqcluster Release Version Architectures forky 1.2.9+ds-7 (contrib) all trixie 1.2.9+ds-5 (contrib) all bookworm 1.2.9+ds-3 (contrib) all bullseye 1.2.7+ds-1 (contrib) all sid 1.2.9+ds-7 (contrib) all Popcon: 0 users (0 upd.)* Versions and Archs Go tagging	License: DFSG free, but needs non-free components Debian package in contrib/non-free Git
Please cite: Lorena Pantano, Marc R. Friedländer, Georgia Escaramís, Esther Lizano, Joan Pallarès-Albanell, Isidre Ferrer, Xavier Estivill and Eulàlia Martí: Specific small-RNA signatures in the amygdala at premotor and motor stages of Parkinson's disease revealed by deep sequencing analysis. (PubMed) Bioinformatics (2015) Registry entries: Bio.tools

varscan ??? missing short description for package varscan :-( https://dkoboldt.github.io/varscan/ Maintainer: Debian Med Packaging Team (Santiago Vila)	Versions of package varscan Release Version Architectures bookworm 2.4.3+dfsg-4 (non-free) amd64 forky 2.4.3+dfsg-5 (non-free) amd64 sid 2.4.3+dfsg-5 (non-free) amd64 trixie 2.4.3+dfsg-4 (non-free) amd64 bullseye 2.4.3+dfsg-3 (non-free) amd64 Popcon: 1 users (0 upd.)* Versions and Archs Go tagging	License: non-free Debian package in contrib/non-free Git
Please cite: Daniel C. Koboldt, Qunyuan Zhang, David E. Larson, Dong Shen, Michael D. McLellan, Ling Lin, Christopher A. Miller, Elaine R. Mardis, Li Ding and Richard K. Wilson: VarScan 2: somatic mutation and copy number alteration discovery in cancer by exome sequencing". (PubMed,eprint) Genome Res. 22(3):568-576 (2012) Registry entries: Bio.tools  SciCrunch  Bioconda

vienna-rna ??? missing short description for package vienna-rna :-( https://www.tbi.univie.ac.at/RNA/ Maintainer: Debian Med Packaging Team (Santiago Vila)	Versions of package vienna-rna Release Version Architectures sid 2.7.0+dfsg-2 (non-free) amd64,arm64,armhf,loong64,ppc64el,riscv64,s390x trixie 2.6.4+dfsg-1 (non-free) amd64,arm64,armel,armhf,ppc64el,riscv64,s390x bookworm 2.5.1+dfsg-1 (non-free) amd64,arm64,mips64el,ppc64el,s390x bullseye 2.4.17+dfsg-2 (non-free) amd64,arm64,armhf forky 2.7.0+dfsg-2 (non-free) amd64,arm64,armhf,ppc64el,riscv64,s390x upstream 2.7.2 Popcon: 1 users (0 upd.)* Newer upstream! Go tagging	License: non-free Debian package in contrib/non-free Git
Please cite: Ronny Lorenz, Stephan H. Bernhart, Christian Höner zu Siederdissen, Hakim Tafer, Christoph Flamm, Peter F. Stadler and Ivo L. Hofacker: ViennaRNA Package 2.0. (eprint) Algorithms for Molecular Biology 6(1):26 (2011) Registry entries: Bio.tools  SciCrunch

Packaging has started and developers might try the packaging code in VCS

arvados managing and analyzing biomedical big data https://github.com/arvados/arvados Responsible: Debian Med Packaging Team (Malihe Asemani)	Versions of package arvados Release Version Architectures VCS 2.0.3-1 all Versions and Archs	License: Apache-2.0 #FIXME Debian package not available Git Version: 2.0.3-1
Arvados is an open source platform for managing, processing, and sharing genomic and other large scientific and biomedical data. With Arvados, bioinformaticians run and scale compute-intensive workflows, developers create biomedical applications, and IT administrators manage large compute and storage resources.

auspice web app for visualizing pathogen evolution https://github.com/nextstrain/auspice Responsible: Debian Med Packaging Team (Andreas Tille)	Versions of package auspice Release Version Architectures VCS 2.10.0-1 all Versions and Archs	License: AGPL-3 Debian package not available Git Version: 2.10.0-1
Nextstrain is an open-source project to harness the scientific and public health potential of pathogen genome data. We provide a continually- updated view of publicly available data with powerful analytics and visualizations showing pathogen evolution and epidemic spread. Our goal is to aid epidemiological understanding and improve outbreak response.
Remark of Debian Med team: That's a nodejs package. Unfortunately lots of preconditions are missing Comments welcome whether it makes sense to package about 20 nodejs packages. A list can be found as "debian/TODO" or as comments in debian/control in Salsa.

blat BLAST-Like Alignment Tool http://genome.ucsc.edu/cgi-bin/hgBlat Responsible: Debian Med Packaging Team (Andreas Tille)	Versions of package blat Release Version Architectures VCS 35-1 all Versions and Archs	License: FreeForScientificUse Debian package not available Git Version: 35-1
BLAT on DNA is designed to quickly find sequences of 95% and greater similarity of length 25 bases or more. It may miss more divergent or shorter sequence alignments. It will find perfect sequence matches of 25 bases, and sometimes find them down to 20 bases. BLAT on proteins finds sequences of 80% and greater similarity of length 20 amino acids or more. In practice DNA BLAT works well on primates, and protein blat on land vertebrates. BLAT is not BLAST. DNA BLAT works by keeping an index of the entire genome in memory. The index consists of all non-overlapping 11-mers except for those heavily involved in repeats. The index takes up a bit less than a gigabyte of RAM. The genome itself is not kept in memory, allowing BLAT to deliver high performance on a reasonably priced Linux box. The index is used to find areas of probable homology, which are then loaded into memory for a detailed alignment. Protein BLAT works in a similar manner, except with 4-mers rather than 11-mers. The protein index takes a little more than 2 gigabytes. Please cite: W. Jim Kent: BLAT--the BLAST-like alignment tool. (PubMed,eprint) Genome Research 12(4):656-64 (2002) Registry entries: Bio.tools  SciCrunch

chime COVID-19 Hospital Impact Model for Epidemics https://github.com/pennsignals/chime Responsible: Debian Med Packaging Team (Andreas Tille)	Versions of package chime Release Version Architectures VCS 0.2.1-1 all Versions and Archs	License: MIT Debian package not available Git Version: 0.2.1-1
Penn Medicine - COVID-19 Hospital Impact Model for Epidemics This tool was developed by the Predictive Healthcare team at Penn Medicine. For questions and comments please see our contact page. Code can be found on Github. Join our Slack channel if you would like to get involved! The estimated number of currently infected individuals is 533. The 91 confirmed cases in the region imply a 17% rate of detection. This is based on current inputs for Hospitalizations (4), Hospitalization rate (5%), Region size (4119405), and Hospital market share (15%). An initial doubling time of 6 days and a recovery time of 14.0 days imply an R_0 of 2.71. Mitigation: A 0% reduction in social contact after the onset of the outbreak reduces the doubling time to 6.0 days, implying an effective R_t of 2.712.712.71.
Remark of Debian Med team: Needs streamlit (see below)

covpipe pipeline to generate consensus sequences from NGS reads https://gitlab.com/RKIBioinformaticsPipelines/ncov_minipipe/-/wikis/home Responsible: Debian Med Packaging Team (Andreas Tille)	Versions of package covpipe Release Version Architectures VCS 3.0.6-1 all Versions and Archs	License: GPL-3+ Debian package not available Git Version: 3.0.6-1
CovPipe is a pipeline to generate consensus sequences from NGS reads based on a reference sequence. The pipeline is tailored to be used for SARS-CoV-2 data, but may be used for other viruses. Genomic variants of your NGS data in comparison to a reference will be determined. These variants will be included into the reference and form the consensus sequences. See below for further details on the determined set of consensus sequences.

ensembl-vep Variant Effect Predictor predicting the functional effects of genomic variants https://github.com/Ensembl/ensembl-vep/ Responsible: Debian Med Packaging Team (Andreas Tille)	Versions of package ensembl-vep Release Version Architectures VCS 100.2-1 all Versions and Archs	License: Apache-2.0 Debian package not available Git Version: 100.2-1
The Ensembl Variant Effect Predictor predicts the functional effects of genomic variants. It has three components: VEP (Variant Effect Predictor) predicts the functional effects of genomic variants. Haplosaurus uses phased genotype data to predict whole-transcript haplotype sequences. Variant Recoder translates between different variant encodings. Please cite: William McLaren, Laurent Gil, Sarah E. Hunt, Harpreet Singh Riat, Graham R. S. Ritchie, Anja Thormann, Paul Flicek and Fiona Cunningham: The Ensembl Variant Effect Predictor. (PubMed,eprint) Genome Biology 17(1):122 (2016) Registry entries: Bioconda

fieldbioinformatics pipeline with virus identification with Nanopore sequencer https://github.com/artic-network/fieldbioinformatics Responsible: Debian Med Packaging Team (Malihe Asemani)	Versions of package fieldbioinformatics Release Version Architectures VCS 1.1.3-1 all Versions and Archs	License: MIT Debian package not available Git Version: 1.1.3-1
This is the ARTIC bioinformatics pipeline for working with virus sequencing data, sequenced with nanopore. It implements a complete bioinformatics protocol to take the output from the Nanopore sequencer and determine consensus genome sequences. Includes basecalling, de-multiplexing, mapping, polishing and consensus generation. An outbreak of SARS-CoV-2, Ebola, ... something unknown? This software is field-proven. Registry entries: Bio.tools  Bioconda

flappie flip-flop basecaller for Oxford Nanopore reads https://github.com/nanoporetech/flappie Responsible: Debian Med Packaging Team (Andreas Tille)	Versions of package flappie Release Version Architectures VCS 2.1.3+ds-1 all Versions and Archs	License: Oxford-Nanopore-PL-1.0 Debian package not available Git Version: 2.1.3+ds-1
Basecall Fast5 reads using flip-flop basecalling. Features Flip-flop basecalling for the MinION platform R9.4.1 (Native or PCR libraries) R10C (PCR libraries only) Basecalling of 5mC in CpG context for R9.4.1, PromethION platform

graphmap2 highly sensitive and accurate mapper for long, error-prone reads https://github.com/lbcb-sci/graphmap2 Responsible: Debian Med Packaging Team (Andreas Tille)	Versions of package graphmap2 Release Version Architectures VCS 0.6.4-1 all Versions and Archs	License: MIT Debian package not available Git Version: 0.6.4-1
GraphMap2 is a highly sensitive and accurate mapper for long, error- prone reads. The mapping algorithm is designed to analyse nanopore sequencing reads, which progressively refines candidate alignments to robustly handle potentially high-error rates and a fast graph traversal to align long reads with speed and high precision (>95%). Evaluation on MinION sequencing data sets against short- and long-read mappers indicates that GraphMap increases mapping sensitivity by 10–80% and maps 95% of bases. GraphMap alignments enabled single-nucleotide variant calling on the human genome with increased sensitivity (15%) over the next best mapper, precise detection of structural variants from length 100 bp to 4 kbp, and species and strain-specific identification of pathogens using MinION reads. Please cite: Ivan Sović, Mile Šikić, Andreas Wilm, Shannon Nicole Fenlon, Swaine Chen and Niranjan Nagarajan: Fast and sensitive mapping of nanopore sequencing reads with GraphMap. (PubMed,eprint) Nature Communications 7(11307) (2016) Registry entries: Bioconda

manta structural variant and indel caller for mapped sequencing data https://github.com/Illumina/manta Responsible: Debian Med Packaging Team (Andreas Tille)	Versions of package manta Release Version Architectures VCS 1.6.0+dfsg-1 all Versions and Archs	License: GPL-3+ Debian package not available Git Version: 1.6.0+dfsg-1
Manta calls structural variants (SVs) and indels from mapped paired-end sequencing reads. It is optimized for analysis of germline variation in small sets of individuals and somatic variation in tumor/normal sample pairs. Manta discovers, assembles and scores large-scale SVs, medium- sized indels and large insertions within a single efficient workflow. The method is designed for rapid analysis on standard compute hardware: NA12878 at 50x genomic coverage is analyzed in less than 20 minutes on a 20 core server, and most WGS tumor/normal analyses can be completed within 2 hours. Manta combines paired and split-read evidence during SV discovery and scoring to improve accuracy, but does not require split- reads or successful breakpoint assemblies to report a variant in cases where there is strong evidence otherwise. It provides scoring models for germline variants in small sets of diploid samples and somatic variants in matched tumor/normal sample pairs. There is experimental support for analysis of unmatched tumor samples as well. Manta accepts input read mappings from BAM or CRAM files and reports all SV and indel inferences in VCF 4.1 format. Please cite: Xiaoyu Chen, Ole Schulz-Trieglaff, Richard Shaw, Bret Barnes, Felix Schlesinger, Morten Källberg, Anthony J. Cox, Semyon Kruglyak and Christopher T. Saunders: Manta: rapid detection of structural variants and indels for germline and cancer sequencing applications. (PubMed,eprint) Bioinformatics 32(8):1220-1222 (2015) Registry entries: Bio.tools  Bioconda

medaka sequence correction provided by ONT Research https://github.com/nanoporetech/medaka Responsible: Debian Med Packaging Team (Andreas Tille)	Versions of package medaka Release Version Architectures VCS 1.0.3+dfsg-1 all Versions and Archs	License: MPL-2.0 Debian package not available Git Version: 1.0.3+dfsg-1
Medaka is a tool to create a consensus sequence from nanopore sequencing data. This task is performed using neural networks applied from a pileup of individual sequencing reads against a draft assembly. It outperforms graph-based methods operating on basecalled data, and can be competitive with state-of-the-art signal-based methods, whilst being much faster. Features Requires only basecalled data. (.fasta or .fastq) Improved accurary over graph-based methods (e.g. Racon). 50X faster than Nanopolish (and can run on GPUs). Methylation aggregation from Guppy .fast5 files. Benchmarks are provided here. Includes extras for implementing and training bespoke correction networks. Registry entries: Bioconda

nanoplot plotting scripts for long read sequencing data https://github.com/wdecoster/NanoPlot Responsible: Debian Med Packaging Team (Andreas Tille)	Versions of package nanoplot Release Version Architectures VCS 1.36.2-1 all Versions and Archs	License: MIT Debian package not available Git Version: 1.36.2-1
NanoPlot provides plotting scripts for long read sequencing data. These scripts perform data extraction from Oxford Nanopore sequencing data in the following formats: fastq files (optionally compressed) fastq files generated by albacore, guppy or MinKNOW containing additional information (optionally compressed) sorted bam files sequencing_summary.txt output table generated by albacore, guppy or MinKnow basecalling (optionally compressed) fasta files (optionally compressed) multiple files of the same type can be offered simultaneously Please cite: Wouter De Coster, Svenn D'Hert, Darrin T Schultz, Marc Cruts and Christine Van Broeckhoven: NanoPack: visualizing and processing long-read sequencing data. (PubMed,eprint) Bioinformatics 34(15):2666-2669 (2018) Registry entries: Bioconda

ncbi-magicblast RNA-seq mapping tool ftp://ftp.ncbi.nlm.nih.gov/blast/executables/magicblast/ Responsible: Debian Med Packaging Team (Michael Crusoe)	Versions of package ncbi-magicblast Release Version Architectures VCS 1.5.0+ds-1 all Versions and Archs	License: PD Debian package not available Git Version: 1.5.0+ds-1
Magic-BLAST is a tool for mapping large next-generation RNA or DNA sequencing runs against a whole genome or transcriptome. Each alignment optimizes a composite score, taking into account simultaneously the two reads of a pair, and in case of RNA-seq, locating the candidate introns and adding up the score of all exons. This is very different from other versions of BLAST, where each exon is scored as a separate hit and read- pairing is ignored. Please cite: Grzegorz M. Boratyn, Jean Thierry-Mieg, Danielle Thierry-Mieg, Ben Busby and Thomas L. Madden: Magic-BLAST, an accurate RNA-seq aligner for long and short reads. (PubMed,eprint) BMC Bioinformatics 20(1):405 (2019) Registry entries: Bioconda

nextflow DSL for data-driven computational pipelines https://github.com/nextflow-io/nextflow Responsible: Debian Med Packaging Team (Pierre Gruet)	Versions of package nextflow Release Version Architectures VCS 23.10.1+dfsg-1 all Versions and Archs	License: Apache-2.0 Debian package not available Git Version: 23.10.1+dfsg-1
Nextflow is a bioinformatics workflow manager that enables the development of portable and reproducible workflows. It supports deploying workflows on a variety of execution platforms including local, HPC schedulers, AWS Batch, Google Genomics Pipelines, and Kubernetes. Additionally, it provides support for manage your workflow dependencies through built-in support for Conda, Docker, Singularity, and Modules. Please cite: Paolo Di Tommaso, Maria Chatzou, Evan W Floden, Pablo Prieto Barja, Emilio Palumbo and Cedric Notredame: Nextflow enables reproducible computational workflows. (PubMed,eprint) Nature Biotechnology 35(4):316-319 (2017)

nextstrain-ncov Nextstrain build for novel coronavirus (nCoV) https://nextstrain.org/ncov Responsible: Debian Med Packaging Team (Andreas Tille)	Versions of package nextstrain-ncov Release Version Architectures VCS 0.0+git20200320.392dc1c-1 all Versions and Archs	License: MIT Debian package not available Git Version: 0.0+git20200320.392dc1c-1
This is a Nextstrain build for novel coronavirus, alternately known as hCoV-19 or SARS-CoV-2, visible at https://nextstrain.org/ncov .
Remark of Debian Med team: needs auspice

nf-core-artic nf-core ARTIC field bioinformatics viral genome pipeline https://github.com/nf-core/artic/ Responsible: Debian Med Packaging Team (Steffen Moeller)	Versions of package nf-core-artic Release Version Architectures VCS 0.0+git20200324.9edd884-1 all Versions and Archs	License: free Debian package not available Git Version: 0.0+git20200324.9edd884-1
RNA-seq workflow for nextflow, meant to form a a bioinformatics pipeline for working with virus sequencing data sequenced with nanopore. This is a reimplementation for the nextflow workflow suite of the ARTIC fieldbioinformatics protocol. This package at the very moment is not much more than a technical exercise. Upstream tagged it as "under development" - and that is what it is here, too. Please cite: Philip Ewels, Alexander Peltzer, Sven Fillinger, Harshil Patel, Johannes Alneberg, Andreas Wilm, Maxime Ulysse Garcia, Paolo Di Tommaso and Sven Nahnsen.: The nf-core framework for community-curated bioinformatics pipelines. Nat Biotechnol. (2020)

oncofuse predicting oncogenic potential of gene fusions https://github.com/mikessh/oncofuse Responsible: Debian Med Packaging Team (Andreas Tille)	Versions of package oncofuse Release Version Architectures VCS 1.1.1-1 all Versions and Archs	License: Apache-2.0 Debian package not available Git Version: 1.1.1-1
Oncofuse is a framework designed to estimate the oncogenic potential of de-novo discovered gene fusions. It uses several hallmark features and employs a bayesian classifier to provide the probability of a given gene fusion being a driver mutation. Please cite: Mikhail Shugay, Iñigo Ortiz de Mendíbil, José L. Vizmanos and Francisco J. Novo: Oncofuse: a computational framework for the prediction of the oncogenic potential of gene fusions. (PubMed,eprint) Bioinformatics 29(20):2539–2546 (2013) Registry entries: SciCrunch

optitype precision HLA typing from next-generation sequencing data https://github.com/FRED-2/OptiType Responsible: Debian Med Packaging Team (Andreas Tille)	Versions of package optitype Release Version Architectures VCS 1.3.2-1 all Versions and Archs	License: <license> Debian package not available Git Version: 1.3.2-1
OptiType is a novel HLA genotyping algorithm based on integer linear programming, capable of producing accurate 4-digit HLA genotyping predictions from NGS data by simultaneously selecting all major and minor HLA Class I alleles. Please cite: András Szolek, Benjamin Schubert, Christopher Mohr, Marc Sturm, Magdalena Feldhahn and Oliver Kohlbacher: OptiType: precision HLA typing from next-generation sequencing data. (PubMed,eprint) Bioinformatics 30(23):3310–3316 (2014)

pangolin Phylogenetic Assignment of Named Global Outbreak LINeages https://github.com/cov-lineages/pangolin Responsible: Debian Med Packaging Team (Andreas Tille)	Versions of package pangolin Release Version Architectures VCS 4.3.1-1 all Versions and Archs	License: GPL-3+ Debian package not available Git Version: 4.3.1-1
Pangolin runs a multinomial logistic regression model trained against lineage assignments based on GISAID data. Legacy pangolin runs using a guide tree and alignment hosted at cov-lineages/lineages. Some of this data is sourced from GISAID, but anonymised and encrypted to fit with guidelines. Appropriate permissions have been given and acknowledgements for the teams that have worked to provide the original SARS-CoV-2 genome sequences to GISAID are also hosted here. Registry entries: Bioconda

pomoxis analysis components from Oxford Nanopore Research https://github.com/nanoporetech/pomoxis Responsible: Debian Med Packaging Team (Andreas Tille)	Versions of package pomoxis Release Version Architectures VCS 0.3.4-1 all Versions and Archs	License: MPL-2.0 Debian package not available Git Version: 0.3.4-1
Pomoxis comprises a set of basic bioinformatic tools tailored to nanopore sequencing. Notably tools are included for generating and analysing draft assemblies. Many of these tools are used by the research data analysis group at Oxford Nanopore Technologies. Features Wraps third party tools with known good default parameters and methods of use. Creates an isolated environment with all third-party tools. Streamlines common short analysis chains. Integrates into katuali for performing more complex analysis pipelines. Registry entries: Bioconda

python3-idseq-dag Pipeline engine for IDseq (Python 3) https://github.com/chanzuckerberg/idseq-dag Responsible: Debian Med Packaging Team (Emmanuel Arias)	Versions of package python3-idseq-dag Release Version Architectures VCS 4.2.3-1 all Versions and Archs	License: MIT Debian package not available Git Version: 4.2.3-1
Idseq_dag is the pipeline execution engine for idseq (see idseq.net). It is a pipelining system that implements a directed acyclic graph (DAG) where the nodes (steps) correspond to individual python classes. The graph is defined using JSON. The pipeline would be executed locally with local machine resources. idseq-dag could be installed inside a docker container and run inside the container. This package installs the library for Python 3.

python3-scanpy Single-Cell Analysis in Python https://github.com/theislab/scanpy Responsible: Debian Med Packaging Team (Steffen Moeller)	Versions of package python3-scanpy Release Version Architectures VCS 1.9.6-1 all Versions and Archs	License: BSD-3-Clause Debian package not available Git Version: 1.9.6-1
Scanpy is a scalable toolkit for analyzing single-cell gene expression data built jointly with anndata. It includes preprocessing, visualization, clustering, trajectory inference and differential expression testing. The Python-based implementation efficiently deals with datasets of more than one million cells. Please cite: F. Alexander Wolf, Philipp Angerer and Fabian J. Theis: SCANPY: large-scale single-cell gene expression data analysis. (eprint) Genome Biology 19(15) (2018) Registry entries: Bio.tools  SciCrunch  Bioconda

qualimap evaluating next generation sequencing alignment data http://qualimap.bioinfo.cipf.es/ Responsible: Debian Med Packaging Team (Andreas Tille)	Versions of package qualimap Release Version Architectures VCS 2.2.1+dfsg-1 all Versions and Archs	License: GPL-2+ Debian package not available Git Version: 2.2.1+dfsg-1
Qualimap 2 provides both a Graphical User Interface (GUI) and a command-line interface to facilitate the quality control of alignment sequencing data and its derivatives like feature counts. Supported types of experiments include: Whole-genome sequencing Whole-exome sequencing RNA-seq (speical mode available) ChIP-seq Qualimap examines sequencing alignment data in SAM/BAM files according to the features of the mapped reads and provides an overall view of the data that helps to the detect biases in the sequencing and/or mapping of the data and eases decision-making for further analysis. Qualimap provides multi-sample comparison of alignment and counts data. Fast analysis accross the reference of genome coverage and nucleotide distribution; Easy to interpret summary of the main properties of the alignment data; Analysis of the reads mapped inside/outside of the regions provided in GFF format; Computation and analysis of read counts obtained from intersectition of read alignments with genomic features; Analysis of the adequasy of the sequencing depth in RNA-seq experiments; Multi-sample comparison of alignment and counts data; Clustering of epigenomic profiles. Please cite: Fernando García-Alcalde, Konstantin Okonechnikov, José Carbonell, Luis M. Cruz, Stefan Götz, Sonia Tarazona, Joaquín Dopazo, Thomas F. Meyer and Ana Conesa: Qualimap: evaluating next-generation sequencing alignment data. (PubMed,eprint) Bioinformatics 28(20):2678-2679 (2012) Registry entries: Bio.tools  SciCrunch  Bioconda

quast Quality Assessment Tool for Genome Assemblies http://bioinf.spbau.ru/quast Responsible: Debian Med Packaging Team (Andreas Tille)	Versions of package quast Release Version Architectures VCS 5.0.2+dfsg-1 all Versions and Archs	License: GPL-2 Debian package not available Git Version: 5.0.2+dfsg-1
QUAST evaluates genome assemblies. For metagenomes, please see MetaQUAST project. It works both with and without a given reference genome. The tool accepts multiple assemblies, thus it allows for comparisons. Please cite: Alla Mikheenko, Andrey Prjibelski, Vladislav Saveliev, Dmitry Antipov and Alexey Gurevich: Versatile genome assembly evaluation with QUAST-LG. Bioinformatics 34(13):i142-i150 (2018) Registry entries: Bio.tools  Bioconda

r-cran-covid19 GNU R Coronavirus COVID-19 data acquisition and visualization https://cran.r-project.org/package=COVID19 Responsible: Debian R Packages Maintainers (Andreas Tille)	Versions of package r-cran-covid19 Release Version Architectures VCS 0.2.1-1 all Versions and Archs	License: GPL-3 Debian package not available Git Version: 0.2.1-1
This GNU R package provides pre-processed, ready-to-use, tidy format datasets of the 2019 Novel Coronavirus COVID-19 (2019-nCoV) epidemic. The latest data are downloaded in real-time, processed and merged with demographic indicators from several trusted sources. The package implements advanced data visualization across the space and time dimensions by means of animated mapping. Besides worldwide data, the package includes granular data for Italy, Switzerland and the Diamond Princess.

r-other-fastbaps A fast genetic clustering algorithm that approximates a Dirichlet Process Mixture model https://github.com/gtonkinhill/fastbaps Responsible: Debian R Packages Maintainers (Andreas Tille)	Versions of package r-other-fastbaps Release Version Architectures VCS 1.0.4-1 all Versions and Archs	License: MIT Debian package not available Git Version: 1.0.4-1
Takes a multiple sequence alignment as input and clusters according to the 'no-admixture' model. It combines ideas from the Bayesian Hierarchical Clustering algorithm of Heller et al. and hierBAPS to produce a rapid and accurate clustering algorithm. Please cite: Gerry Tonkin-Hill, John A Lees, Stephen D Bentley, Simon D W Frost and Jukka Corander: Fast hierarchical Bayesian analysis of population structure. (PubMed,eprint) Nucleic Acids Research 47(11):5539–5549 (2019) Registry entries: Bioconda

rosa Removal of Spurious Antisense in biological RNA sequences https://github.com/bartongroup/RoSA Responsible: Debian Med Packaging Team (Steffen Moeller)	Versions of package rosa Release Version Architectures VCS 1.0-1 all Versions and Archs	License: GPL-3.0+ Debian package not available Git Version: 1.0-1
In stranded RNA-Seq experiments it is possible to detect and measure antisense transcription, important since antisense transcripts impact gene transcription in several different ways. Stranded RNA-Seq determines the strand from which an RNA fragment originates, and so can be used to identify where antisense transcription may be implicated in gene regulation. However, spurious antisense reads are often present in experiments, and can manifest at levels greater than 1% of sense transcript levels. This is enough to disrupt analyses by causing false antisense counts to dominate the set of genes with high antisense transcription levels. The RoSA (Removal of Spurious Antisense) tool detects the presence of high levels of spurious antisense transcripts, by: analysing ERCC spike-in data to find the ratio of antisense:sense transcripts in the spike-ins; or using antisense and sense counts around splice sites to provide a set of gene-specific estimates; or both. Once RoSA has an estimate of the spurious antisense, expressed as a ratio of antisense:sense counts, RoSA will calculate a correction to the antisense counts based on the ratio. Where a gene-specific estimate is available for a gene, it will be used in preference to the global estimate obtained from either spike-ins or spliced reads. This package provides the library for the statistics suite R.

sailfish RNA-seq expression estimation https://www.cs.cmu.edu/~ckingsf/software/sailfish/ Responsible: Debian Med Packaging Team (Steffen Moeller)	Versions of package sailfish Release Version Architectures VCS 0.10.1+dfsg-1 all Versions and Archs	License: GPL-3.0+ Debian package not available Git Version: 0.10.1+dfsg-1
RNA-seq is a technology to read at least parts of individual RNA sequences of a tissue sample. After assigning these reads to genes that are likely responsible to have coded for them (mapping), this gives an insight (estimate) about how much these genes have been active (expressed) in that sample. The trickier bits in that process to address is the similarity of genes and the genes being capable to variably but deterministically skip parts of their sequence to be read (introns). A single variantly spliced gene may then yield different sequences (isoforms) and the RNA-seq evaluation better informs about this. It may be relevant for a disease. Sailfish is particularly good (efficient) in this process. It tricks the complexity by introducing an intermediate level of artificial very short reads to which the alternative splicing is of no concern. That can then be addressed by "telephone-book"-like hashing techniques that are easy and lightning fast. The final presentation is then found to be competitive with established mappers like eXpress and Cufflinks. Please cite: Rob Patro, Stephen M Mount and Carl Kingsford: Sailfish enables alignment-free isoform quantification from RNA-seq reads using lightweight algorithms. (PubMed) Nature Biotechnology 32(5):462-464 (2014) Registry entries: Bio.tools

seqwish alignment to variation graph inducer https://github.com/ekg/seqwish Responsible: Debian Med Packaging Team (Steffen Moeller)	Versions of package seqwish Release Version Architectures VCS 0.7.1-1 all Versions and Archs	License: MIT Debian package not available Git Version: 0.7.1-1
Seqwish implements a lossless conversion from pairwise alignments between sequences to a variation graph encoding the sequences and their alignments. As input we typically take all-versus-all alignments, but the exact structure of the alignment set may be defined in an application specific way. This algorithm uses a series of disk-backed sorts and passes over the alignment and sequence inputs to allow the graph to be constructed from very large inputs that are commonly encountered when working with large numbers of noisy input sequences. Memory usage during construction and traversal is limited by the use of sorted disk-backed arrays and succinct rank/select dictionaries to record a queryable version of the graph. Registry entries: Bioconda

signalalign HMM-HDP models for MinION signal alignments https://github.com/ArtRand/signalAlign Responsible: Debian Med Packaging Team (Andreas Tille)	Versions of package signalalign Release Version Architectures VCS 0.0+git20170131.3293fad+dfsg-1 all Versions and Archs	License: MIT Debian package not available Git Version: 0.0+git20170131.3293fad+dfsg-1
MinION signal-level alignment and methylation detection using hidden Markov Models with hierarchical Dirichlet process kmer learning. Nanopore sequencing is based on the principal of isolating a nanopore in a membrane separating buffered salt solutions, then applying a voltage across the membrane and monitoring the ionic current through the nanopore. The Oxford Nanopore Technologies (ONT) MinION sequences DNA by recording the ionic current as DNA strands are enzymatically guided through the nanopore. SignalAlign will align the ionic current from the MinION to a reference sequence using a trainable hidden Markov model (HMM). The emissions model for the HMM can either be the table of parametric normal distributions provided by ONT or a hierarchical Dirichlet process (HDP) mixture of normal distributions. The HDP models enable mapping of methylated bases to your reference sequence. Registry entries: Bio.tools

streamlit fast way to build custom ML tools https://github.com/streamlit/streamlit Responsible: Debian Science Team (Andreas Tille)	Versions of package streamlit Release Version Architectures VCS 0.56.0-1 all Versions and Archs	License: Apache-2.0 Debian package not available Git Version: 0.56.0-1
Streamlit lets you create apps for your machine learning projects with deceptively simple Python scripts. It supports hot-reloading, so your app updates live as you edit and save your file. No need to mess with HTTP requests, HTML, JavaScript, etc. All you need is your favorite editor and a browser.
Remark of Debian Med team: Help is urgently needed - no idea how to package this :-( This is a machine learning framework which is required by chime. Needs python3-tensorflow

strelka strelka2 germline and somatic small variant caller https://github.com/Illumina/strelka/ Responsible: Debian Med Packaging Team (Andreas Tille)	Versions of package strelka Release Version Architectures VCS 2.9.10+dfsg-1 all Versions and Archs	License: GPL-3+ Debian package not available Git Version: 2.9.10+dfsg-1
Strelka2 is a fast and accurate small variant caller optimized for analysis of germline variation in small cohorts and somatic variation in tumor/normal sample pairs. The germline caller employs an efficient tiered haplotype model to improve accuracy and provide read-backed phasing, adaptively selecting between assembly and a faster alignment- based haplotyping approach at each variant locus. The germline caller also analyzes input sequencing data using a mixture-model indel error estimation method to improve robustness to indel noise. The somatic calling model improves on the original Strelka method for liquid and late- stage tumor analysis by accounting for possible tumor cell contamination in the normal sample. A final empirical variant re-scoring step using random forest models trained on various call quality features has been added to both callers to further improve precision. Please cite: Sangtae Kim, Konrad Scheffler, Aaron L. Halpern, Mitchell A. Bekritsky, Eunho Noh, Morten Källberg, Xiaoyu Chen, Yeonbin Kim, Doruk Beyter, Peter Krusche and Christopher T. Saunders: Strelka2: fast and accurate calling of germline and somatic variants. (PubMed) Nature Methods 15(8):591–594 (2018) Registry entries: Bioconda

ufasta utility to manipulate fasta files https://github.com/alekseyzimin/ufasta Responsible: Debian Med Packaging Team (Andreas Tille)	Versions of package ufasta Release Version Architectures VCS 0.0.3+git20190131.85d60d1-1 all Versions and Archs	License: to_be_clarified Debian package not available Git Version: 0.0.3+git20190131.85d60d1-1
Description of ufasta subcommands: one: remove the new lines in the data section. Hence, all the sequences are written on one line. In some sense, it is the opposite of the format subcommand. format: reformat the data sections. The data is written in lines of the same length, it can changes the content in upper/lower case. sizes: print the amount of sequence in each section head: like UNIX head. Display the first 10 sequences tail: like UNIX tail. Display the last 10 sequences rc: reverse complement every sequence n50, stats: display stats about the sequences: N50, E size, total size, etc. extract: extract a sequence whose header match given names hsort, sort: sort file based on header content dsort: sort the data sections hgreap: output sequences whose header match the regular expression dgresp: output sequences whose sequence match the regular expression split: split a fasta file into many files

vadr classification and annotation of viral sequences https://github.com/ncbi/vadr Responsible: Debian Med Packaging Team (Andreas Tille)	Versions of package vadr Release Version Architectures VCS 1.2.1-1 all Versions and Archs	License: public_domain Debian package not available Git Version: 1.2.1-1
VADR (Viral Annotation DefineR) is a suite of tools for classifying and analyzing sequences homologous to a set of reference models of viral genomes or gene families. It has been mainly tested for analysis of Norovirus and Dengue virus sequences in preparation for submission to the GenBank database and finds its application also for the ongoing pandemics. Please cite: Alejandro A Schäffer, Eneida L Hatcher, Linda Yankie, Lara Shonkwiler, J Rodney Brister, Ilene Karsch-Mizrachi and Eric P Nawrocki: VADR: validation and annotation of virus sequence submissions to GenBank. (eprint) bioRxiv (2020) Registry entries: Bio.tools