Summary

Biology

Debian Science Biology packages

This metapackage will install Debian Science packages related to Biology. You might also be interested in the field::biology debtag.

This metapackage makes use of the packages med-bio and med-bio-dev (for development of biological applications) which are maintained by Debian Med - another Debian Pure Blend. If you are a biologist you are most probably interested in the Debian Med project which deals with biology and medicine in much more detail then the more general Debian Science.

Description

For a better overview of the project's availability as a Debian package, each head row has a color code according to this scheme:

Official Debian packages with high relevance
Official Debian packages with lower relevance
Packaging has started and developers might try the packaging code in VCS

If you discover a project which looks like a good candidate for Debian Science to you, or if you have prepared an unofficial Debian package, please do not hesitate to send a description of that project to the Debian Science mailing list

Links to other tasks

Index of all tasks

Brain-computer interface

Biology

Chemistry

Data acquisition

Data acquisition development

Data Management

Devices

Distributed Computing

Economics

Electrophysiology

Engineering

Engineering-dev

Financial engineering

Geography

Geometry

High Energy Physics

High Energy Physics (devel)

Image analysis

Image analysis development

Linguistics

Logic

Machine Learning

Mathematics

Mathematics-dev

Meteorology

Meteorology-dev

Nanoscale Physics

Nanoscale Physics Development

Cognitive Neuroscience

Neuroscience Datasets

Modeling of neural systems

Numerical Computation

Physics

Physics-dev

Presentation

Psychophysics

Robotics

Robotics-dev

Simulations

Social

Statistics

Tools

typesetting

Viewing

Viewing-dev

Workflow

Debian Science Biology packages

Official Debian packages with high relevance

critterding

??? missing short description for package critterding :-(

https://critterding.sourceforge.net/

Maintainer: Debian Science Maintainers (Andreas Tille)

Versions of package critterding
Release	Version	Architectures
bookworm	1.0-beta12.1-1.3	amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x
trixie	1.0-beta12.1+dfsg-1	amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x
forky	1.0-beta12.1+dfsg-1	amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x
sid	1.0-beta12.1+dfsg-1	amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x
experimental	1.0-beta14+dfsg-2	amd64,arm64,armhf,i386,ppc64el,s390x
bullseye	1.0-beta12.1-1.3	amd64,arm64,armhf,i386

Popcon: 3 users (3 upd.)^*

Versions and Archs

Edit Debtags

License: DFSG free

Official Debian package

Git

med-bio

??? missing short description for package med-bio :-(

Maintainer: Debian Med Packaging Team (Andreas Tille)

Popcon: 7 users (36 upd.)^*

Versions and Archs

Edit Debtags

License: DFSG free

Official Debian package

Git

Upload screenshot

Remark of Debian Science team: Maintained by Debian Med Blend

For more information see http://debian-med.alioth.debian.org/tasks/bio

nmodl

??? missing short description for package nmodl :-(

https://github.com/BlueBrain/nmodl

Maintainer: Debian Science Maintainers (Alexandre Detiste)

Versions of package nmodl
Release	Version	Architectures
bookworm	0.5-1	amd64,arm64,mips64el,ppc64el,s390x
trixie	0.6-2	amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x
forky	0.6-4	amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x
sid	0.6-4	amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x
upstream	1.0-alpha-llvm

Popcon: 1 users (4 upd.)^*

Newer upstream!

Go tagging

License: DFSG free

Official Debian package

Git

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nrn-mod2c

??? missing short description for package nrn-mod2c :-(

https://github.com/BlueBrain/mod2c

Maintainer: Debian Science Team (Matthias Klumpp)

Versions of package nrn-mod2c
Release	Version	Architectures
bookworm	0.9+git220919-2	amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x
trixie	8.2.2-1	amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x
sid	8.2.2-1	amd64,arm64,armhf,i386,ppc64el,riscv64,s390x

Popcon: 1 users (3 upd.)^*

Versions and Archs

Go tagging

License: DFSG free

Official Debian package

Git

Upload screenshot

Official Debian packages with lower relevance

libinterviews-dev

??? missing short description for package libinterviews-dev :-(

https://github.com/neuronsimulator/iv

Maintainer: Debian Science Team (Matthias Klumpp)

Versions of package libinterviews-dev
Release	Version	Architectures
forky	3.1+git20250501-1	amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x
trixie	3.1+git20250501-1	amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x
bookworm	3.1+git20221204-2	amd64,arm64,armel,armhf,i386,mips64el,mipsel,ppc64el,s390x
sid	3.1+git20250501-1	amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x

Popcon: 2 users (2 upd.)^*

Versions and Archs

Go tagging

License: DFSG free

Official Debian package

Git

Upload screenshot

med-bio-dev

??? missing short description for package med-bio-dev :-(

Maintainer: Debian Med Packaging Team (Andreas Tille)

Popcon: 7 users (35 upd.)^*

Versions and Archs

Edit Debtags

License: DFSG free

Official Debian package

Git

Upload screenshot

Remark of Debian Science team: Maintained by Debian Med Blend

For more information see http://debian-med.alioth.debian.org/tasks/bio-dev

python3-nmodl

??? missing short description for package python3-nmodl :-(

https://github.com/BlueBrain/nmodl

Maintainer: Debian Science Maintainers (Alexandre Detiste)

Versions of package python3-nmodl
Release	Version	Architectures
trixie	0.6-2	amd64,arm64,armel,armhf,i386,ppc64el,riscv64,s390x
bookworm	0.5-1	amd64,arm64,mips64el,ppc64el,s390x
sid	0.6-4	amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x
forky	0.6-4	amd64,arm64,armhf,i386,loong64,ppc64el,riscv64,s390x
upstream	1.0-alpha-llvm

Popcon: 2 users (4 upd.)^*

Newer upstream!

Go tagging

License: DFSG free

Official Debian package

Git

Upload screenshot

siconos

??? missing short description for package siconos :-(

https://nonsmooth.gricad-pages.univ-grenoble-alpes.fr/siconos/index.html

Maintainer: Debian Science Maintainers (Stephen Sinclair)

Versions of package siconos
Release	Version	Architectures
bookworm	4.4.0+dfsg-2	all
sid	4.4.0+dfsg-6	all
bullseye	4.3.1+dfsg-2	all
upstream	2026.rc1

Popcon: 1 users (3 upd.)^*

Newer upstream!

Go tagging

License: DFSG free

Official Debian package

Git

Please cite: Vincent Acary and Bernard Brogliato: The SICONOS Platform :443-488 (2008)

Upload screenshot

siconos-mechanics-tools

??? missing short description for package siconos-mechanics-tools :-(

https://nonsmooth.gricad-pages.univ-grenoble-alpes.fr/siconos/index.html

Maintainer: Debian Science Maintainers (Stephen Sinclair)

Versions of package siconos-mechanics-tools
Release	Version	Architectures
bookworm	4.4.0+dfsg-2	all
sid	4.4.0+dfsg-6	all
bullseye	4.3.1+dfsg-2	all
upstream	2026.rc1

Popcon: 0 users (1 upd.)^*

Newer upstream!

Go tagging

License: DFSG free

Official Debian package

Git

Please cite: Vincent Acary and Bernard Brogliato: The SICONOS Platform :443-488 (2008)

Upload screenshot

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

bauble

biodiversity collection manager software application

http://bauble.belizebotanic.org/

Responsible: Debian Science Team (Andreas Tille)

Versions and Archs

License: free

Debian package not available

Git

Version: 0.9.7-3

Bauble is a software application to help you manage a collection of botanical specimens. It is intended to be used by botanic gardens, herbaria, arboreta, etc. to manage their collection information. It is a open, free, cross-platform alternative to BG-Base and similar software.

genesis

general-purpose neural simulator

http://genesis-sim.org/

Responsible: Debian Science Maintainers (Gabriele Giacone)

Versions and Archs

License: free

Debian package not available

Git

Version: 2.3+dfsg-1

GENESIS is a general purpose simulation platform which was developed to support the simulation of neural systems ranging from complex models of single neurons to simulations of large networks made up of more abstract neuronal components.

GENESIS has provided the basis for laboratory courses in neural simulation at both Caltech and the Marine Biological Laboratory in Woods Hole, MA. Most current GENESIS applications involve realistic simulations of biological neural systems. Although the software can also model more abstract networks, other simulators are more suitable for backpropagation and similar connectionist modeling.