Debian Med Project
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Summary
Physics
Debian Med packages for medical physicists

This metapackage contains dependencies for a collection of software and documentation which is useful for medical physicists in radiation oncology, diagnostics imaging and related fields.

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:

If you discover a project which looks like a good candidate for Debian Med 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 Med mailing list

Links to other tasks

Debian Med Physics packages

Official Debian packages with high relevance

Biosig-tools
herramientas de copnversiónd e formatos para formatos de datos biomédicos
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Basado en la librería BioSig, este paquete provee herramientas de línea de comandos, como

  • save2gdf: conversor entre diferentes formatos de archivo, incluyendo pero no limitado a SCP-ECG(EN1064), HL7aECG (FDA-XML), GDF, EDF, BDF, CWFB. save2gdf puede ser usado también para subir o recuperar datos de un servidor bscs.
Please cite: Alois Schlögl and Clemens Brunner: BioSig: A Free and Open Source Software Library for BCI Research. (eprint) Computer 41(10):44-50 (2008)
Gdf-tools
IO library for the GDF -- helper tools
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GDF (General Dataformat for Biosignals) is intended to provide a generic storage for biosignals, such as EEG, ECG, MEG etc.

This package provides the tool shipped with the library (gdf_merger).

Octave
GNU Octave language for numerical computations
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Octave is a (mostly Matlab (R) compatible) high-level language, primarily intended for numerical computations. It provides a convenient command-line interface for solving linear and nonlinear problems numerically.

Octave can be dynamically extended with user-supplied C++ files.

The package is enhanced by the following packages: liboctave-dev octave-doc texmacs
Please cite: John W. Eaton, David Bateman, Søren Hauberg and Rik Wehbring: GNU Octave version 4.2.0 manual: a high-level interactive language for numerical computations. (2016)
Registry entries: SciCrunch 
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https://screenshots.debian.net/screenshots/000/004/401/large.png
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Paw
Estación de trabajo de análisis físico, un programa grafico de análisis
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CERNLIB es un conjunto de herramientas y bibliotecas de análisis de datos creados para usarse en experimentos de física, pero también en aplicaciones de otros campos como las ciencias biológicas.

PAW es un programa interactivo que proporciona una presentación gráfica interactiva además de unas herramientas estadísticas y matemáticas. Está diseñado para trabajar con objetos familiares a la física tales como histogramas, ficheros de eventos (Ntuplas), vectores, etc.

El programa está compilado estáticamente en base a las bibliotecas CERN sobre arquitecturas de 64 bits para así funcionar apropiadamente, ya que su diseño no es puramente de 64 bits.

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Paw++
Estación de trabajo de análisis físico (versión mejorada de «lesstif»)
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CERNLIB es un conjunto de herramientas y bibliotecas de análisis de datos creados para usarse en experimentos de física, pero también en aplicaciones de otros campos como las ciencias biológicas.

Este paquete incluye Paw++, un programa interactivo para usar en análisis y representación gráfica. Paw++ es el mismo programa que PAW (en el paquete «paw»), pero con una interfaz de usuario más amigable basada en Motif, compilada con Lesstif en Debian.

El programa está enlazado estáticamente con las bibliotecas CERN en arquitecturas de 64 bits para así funcionar correctamente, ya que su diseño

 de 64 bits no es muy limpio.
R-base
GNU R statistical computation and graphics system
Maintainer: Dirk Eddelbuettel
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R is a system for statistical computation and graphics. It consists of a language plus a run-time environment with graphics, a debugger, access to certain system functions, and the ability to run programs stored in script files.

The design of R has been heavily influenced by two existing languages: Becker, Chambers & Wilks' S and Sussman's Scheme. Whereas the resulting language is very similar in appearance to S, the underlying implementation and semantics are derived from Scheme.

The core of R is an interpreted computer language which allows branching and looping as well as modular programming using functions. Most of the user-visible functions in R are written in R. It is possible for the user to interface to procedures written in the C, C++, or FORTRAN languages for efficiency, and many of R's core functions do so. The R distribution contains functionality for a large number of statistical procedures and underlying applied math computations. There is also a large set of functions which provide a flexible graphical environment for creating various kinds of data presentations.

Additionally, several thousand extension "packages" are available from CRAN, the Comprehensive R Archive Network, many also as Debian packages, named 'r-cran-'.

This package is a metapackage which eases the transition from the pre-1.5.0 package setup with its larger r-base package. Once installed, it can be safely removed and apt-get will automatically upgrade its components during future upgrades. Providing this package gives a way to users to then only install r-base-core if they so desire.

The package is enhanced by the following packages: texmacs
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Official Debian packages with lower relevance

Libbiosig-dev
I/O library for biomedical data - development files
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BioSig is a library for accessing files in several biomedical data formats (including EDF, BDF, GDF, BrainVision, BCI2000, CFWB, HL7aECG, SCP_ECG (EN1064), MFER, ACQ, CNT(Neuroscan), DEMG, EGI, EEG1100, FAMOS, SigmaPLpro, TMS32). The complete list of supported file formats is available at http://pub.ist.ac.at/~schloegl/biosig/TESTED .

This package provides header files and static library.

Please cite: Alois Schlögl and Clemens Brunner: BioSig: A Free and Open Source Software Library for BCI Research. (eprint) Computer 41(10):44-50 (2008)
Octave-biosig
Octave bindings for BioSig library
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This package provides Octave bindings for BioSig library. Primary goal -- I/O interface to variety of biomedical file formats, including but not limited to SCP-ECG(EN1064), HL7aECG (FDA-XML), GDF, EDF.

Please cite: Alois Schlögl and Clemens Brunner: BioSig: A Free and Open Source Software Library for BCI Research. (eprint) Computer 41(10):44-50 (2008)
Paw-demos
Ejemplos y pruebas de la estación de trabajo de análisis físicos
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CERNLIB es un conjunto de herramientas y bibliotecas de análisis de datos creados para usarse en experimentos de física, pero también en aplicaciones de otros campos como las ciencias biológicas.

Este paquete incluye scripts de ejemplo para usar PAW y Paw++, y scripts de prueba para asegurarse de que PAW y Paw++ se comportan correctamente. Puede ejecutar los ejemplos y pruebas con el programa paw-demos, que se incluye.

Python-multipletau
multiple-tau algorithm for Python/NumPy
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Multipe-tau correlation is computed on a logarithmic scale (less data points are computed) and is thus much faster than conventional correlation on a linear scale such as numpy.correlate

An online reference is available at http://paulmueller.github.io/multipletau

This is the Python 2 version of the package

Python3-biosig
Python3 bindings for BioSig library
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This package provides Python3 bindings for BioSig library. Primary goal -- I/O interface to variety of biomedical file formats, including but not limited to SCP-ECG(EN1064), HL7aECG (FDA-XML), GDF, EDF.

Please cite: Alois Schlögl and Clemens Brunner: BioSig: A Free and Open Source Software Library for BCI Research. (eprint) Computer 41(10):44-50 (2008)

No known packages available but some record of interest (WNPP bug)

Gate - wnpp
Geant4 Application for Emission Tomography
Responsible: Nicolas Spalinger
License: LGPL
Debian package not available

GATE incorporates the Geant4 libraries in a modular, versatile, and scripted simulation toolkit which is adapted to the field of nuclear medicine both in PET (Positron Emission Tomography) and SPECT (Single Photon Emission Computer Tomography). It allows the accurate description of time-dependent phenomena such as source or detector movement and source decay kinetics. The ability to synchronize all time-dependent components allows a coherent description of the acquisition process. It makes it possible to perform realistic simulations of data acquisitions in time.

Openvibe - wnpp
platform for the design, test and use of BCI
License: LGPL
Debian package not available
Language: C++

OpenViBE enables to design, test and use Brain-Computer Interfaces (BCI). OpenViBE is a software for real-time neurosciences (that is, for real-time processing of brain signals). It can be used to acquire, filter, process, classify and visualize brain signals in real time.

*Popularitycontest results: number of people who use this package regularly (number of people who upgraded this package recently) out of 200718