» Tanglu » Packages » staging » science

Software Packages in "staging", Subsection science

3depict (0.0.18-2)
visualisation and analysis for single valued point data
abacas (1.3.1-3)
Algorithm Based Automatic Contiguation of Assembled Sequences
abyss (1.9.0-1) [non-free]
de novo, parallel, sequence assembler for short reads
acedb-other (4.9.39+dfsg.01-6)
retrieval of DNA or protein sequences
acedb-other-belvu (4.9.39+dfsg.01-6)
multiple sequence alignment editor
acedb-other-dotter (4.9.39+dfsg.01-6)
visualisation of sequence similarity
aces3 (3.0.8-5b2)
Advanced Concepts in Electronic Structure III
aces3-data (3.0.8-5b2)
Advanced Concepts in Electronic Structure III
achilles (2-8.2)
An artificial life and evolution simulator
adun-core (0.81-8)
Molecular Simulator
adun.app (0.81-8)
Molecular Simulator for GNUstep (GUI)
aegean (0.15.2+dfsg-1)
integrated genome analysis toolkit
aeskulap (0.2.2b1-15b4)
medical image viewer and DICOM network client
aevol (4.4-1b1)
digital genetics model to run Evolution Experiments in silico
aghermann (1.0.9-1b2)
Sleep-research experiment manager
alfa (0.98-1)
Automated Line Fitting Algorithm
algotutor (0.8.6-1)
program for observing the intermediate steps of algorithm
alien-hunter (1.7-3)
Interpolated Variable Order Motifs to identify horizontally acquired DNA
altree (1.3.1-4)
program to perform phylogeny-based association and localization analysis
altree-examples (1.3.1-4)
example files for ALTree
amap-align (2.2-5)
Protein multiple alignment by sequence annealing
ampliconnoise (1.29-5)
removal of noise from 454 sequenced PCR amplicons
andi (0.10-2)
Efficient Estimation of Evolutionary Distances
anfo (0.98-4b3)
Short Read Aligner/Mapper from MPG
apbs (1.4-1)
Adaptive Poisson Boltzmann Solver
apertium-af-nl (0.2.0~r58256-1)
Apertium translation data for the Afrikaans-Dutch pair
apertium-apy (0.1.0~r61425-1)
Apertium APY service
apertium-arg (0.1.2~r65494-1)
Apertium single language data for Aragonese
apertium-br-fr (0.5.0~r61325-1)
Apertium linguistic data to translate between Breton and French
apertium-ca-it (0.1.1~r57554-1)
Apertium translation data for the Catalan-Italian pair
apertium-cat (1.0.0~r65787-1)
Apertium single language data for Catalan
apertium-cy-en (0.1.1~r57554-3)
Apertium translation data for the Welsh-English pair
apertium-dan (0.5.0~r67099-1)
Apertium single language data for Danish
apertium-dan-nor (1.3.0~r67099-1)
Apertium translation data for the Danish-Norwegian pair
apertium-dev (3.4.0~r61013-5)
Development tools and library for Apertium
apertium-en-ca (0.9.3~r61328-1)
Apertium translation data for the English-Catalan pair
apertium-en-gl (0.5.2~r57551-1)
Apertium translation data for the English-Galician pair
apertium-eo-en (1.0.0~r63833-1)
Apertium linguistic data to translate between Esperanto and English
apertium-eo-fr (0.9.0~r57551-1)
Apertium translation data for the Esperanto-French pair
apertium-es-ast (1.1.0~r51165-1)
Apertium translation data for the Spanish-Asturian pair
apertium-fra (1.0.0~r65786-1)
Apertium single language data for French
apertium-fra-cat (1.1.0~r64309-1)
Apertium translation data for the French-Catalan pair
apertium-lex-tools (0.1.1~r66150-1)
Constraint-based lexical selection module
apertium-nno (0.9.0~r69513-1)
Apertium single language data for Norwegian Nynorsk
apertium-nno-nob (1.1.0~r66076-1)
Apertium translation data for the Norwegian Nynorsk-Norwegian Bokmål pair
apertium-nob (0.9.0~r69513-1)
Apertium single language data for Norwegian Bokmål
apertium-sme-nob (0.6.0~r61921-1)
Apertium translation data for the Northern Sami-Norwegian Bokmål pair
apertium-spa (0.1.0~r65494-1)
Apertium single language data for Spanish
apertium-swe (0.7.0~r69513-1)
Apertium single language data for Swedish
apertium-swe-dan (0.7.0~r66063-1)
Apertium translation data for the Swedish-Danish pair
aragorn (1.2.36-6)
tRNA and tmRNA detection in nucleotide sequences
ariba (1.0.0-1)
Antibiotic Resistance Identification By Assembly
artemis (16.0.0+dfsg-5)
genome browser and annotation tool
artfastqgenerator (0.0.20150519-1)
ouputs artificial FASTQ files derived from a reference genome
artfastqgenerator-examples (0.0.20150519-1)
ouputs artificial FASTQ files derived from a reference genome (examples)
asdftool (1.1.0-2)
Command line tool to manipulate ASDF scientific data files
ask (1.0.1-2)
Adaptive Sampling Kit for big experimental spaces
astro-tasks (0.3)
Debian Astronomy Pure Blend (tasksel tasks)
astromatic (1.1)
Astronomical pipeline software collection
astrometry-data-2mass (1.1) [contrib]
Astrometry.net 2MASS index files downloader
astrometry-data-2mass-00 (1.1) [contrib]
Astrometry.net 2MASS index files downloader (2'-2.8')
astrometry-data-2mass-01 (1.1) [contrib]
Astrometry.net 2MASS index files downloader (2.8'-4')
astrometry-data-2mass-02 (1.1) [contrib]
Astrometry.net 2MASS index files downloader (4'-5.6')
astrometry-data-2mass-03 (1.1) [contrib]
Astrometry.net 2MASS index files downloader (5.6'-8')
astrometry-data-2mass-04 (1.1) [contrib]
Astrometry.net 2MASS index files downloader (8'-11')
astrometry-data-2mass-05 (1.1) [contrib]
Astrometry.net 2MASS index files downloader (11'-16')
astrometry-data-2mass-06 (1.1) [contrib]
Astrometry.net 2MASS index files downloader (16'-22')
astrometry-data-2mass-07 (1.1) [contrib]
Astrometry.net 2MASS index files downloader (22'-30')
astrometry-data-2mass-08-19 (1.1) [contrib]
Astrometry.net 2MASS index files downloader (30'-2000')
astrometry-data-tycho2 (2-3)
Astrometry.net Tycho-2 index files
astrometry-data-tycho2-07 (2-3)
Astrometry.net Tycho-2 index files (22'-30')
astrometry-data-tycho2-07-bigendian (2-3)
Astrometry.net Tycho-2 big endian index files (22'-30')
astrometry-data-tycho2-07-littleendian (2-3)
Astrometry.net Tycho-2 little endian index files (22'-30')
astrometry-data-tycho2-08 (2-3)
Astrometry.net Tycho-2 index files (30'-44')
astrometry-data-tycho2-08-bigendian (2-3)
Astrometry.net Tycho-2 big endian index files (30'-44')
astrometry-data-tycho2-08-littleendian (2-3)
Astrometry.net Tycho-2 little endian index files (30'-44')
astrometry-data-tycho2-09 (2-3)
Astrometry.net Tycho-2 index files (44'-60')
astrometry-data-tycho2-09-bigendian (2-3)
Astrometry.net Tycho-2 big endian index files (44'-60')
astrometry-data-tycho2-09-littleendian (2-3)
Astrometry.net Tycho-2 little endian index files (44'-60')
astrometry-data-tycho2-10-19 (2-3)
Astrometry.net Tycho-2 index files (60'-2000')
astrometry-data-tycho2-10-19-bigendian (2-3)
Astrometry.net Tycho-2 big endian index files (60'-2000')
astrometry-data-tycho2-10-19-littleendian (2-3)
Astrometry.net Tycho-2 little endian index files (60'-2000')
astrometry.net (0.67+dfsg-1b5)
Astrometry plate solver
astronomical-almanac (5.6-4)
astronomical almanac - calculate planet and star positions
astropy-utils (1.1.2-1)
Command line tools from astropy
augustus (3.2.2+dfsg-1)
gene prediction in eukaryotic genomes
augustus-data (3.2.2+dfsg-1)
data files for AUGUSTUS
autodock (4.2.6-3)
analysis of ligand binding to protein structure
autodock-getdata (4.2.6-3)
instructions for getData to collect compounds
autodock-test (4.2.6-3)
test files for AutoDock
autodock-vina (1.1.2-3b2)
docking of small molecules to proteins
autodocktools (1.5.7~rc1+cvs.20140424-1) [non-free]
GUI to help set up, launch and analyze AutoDock dockings
autogrid (4.2.6-3)
pre-calculate binding of ligands to their receptor
autogrid-test (4.2.6-3)
test files for AutoGrid
avce00 (2.0.0-5)
Conversion of ESRI Arcinfo Vector Coverage in E00 format
avogadro (1.0.3-13)
Molecular Graphics and Modelling System
avogadro-data (1.0.3-13)
Molecular Graphics and Modelling System (Data Files)
aweather (0.8.1-1b2)
Advanced Weather Monitoring Program
axe-demultiplexer (0.3.1-4)
Trie-based DNA sequencing read demultiplexer
bagel (0.0~git20160507-2b1)
Computational Chemistry Package
bagel-data (0.0~git20160507-2b1)
Computational Chemistry Package (data files)
bamtools (2.4.0+dfsg-6)
toolkit for manipulating BAM (genome alignment) files
barrnap (0.7+dfsg-2)
rapid ribosomal RNA prediction
bart (0.3.00-1b2)
tools for computational magnetic resonance imaging
bauble (0.9.7-2.1)
biodiversity collection manager software application
bcftools (1.3.1-1)
genomic variant calling and manipulation of VCF/BCF files
beagle (4.1~160616-7e4+dfsg-1)
Genotype calling, genotype phasing and imputation of ungenotyped markers
beast-mcmc (1.7.5-1) [contrib]
Bayesian MCMC phylogenetic inference
bedtools (2.25.0-1)
suite of utilities for comparing genomic features
bedtools-test (2.25.0-1)
test data for the bedtools package
berkeley-express (1.5.1-1)
Streaming quantification for high-throughput sequencing
bibus (1.5.2-4)
bibliographic database
bio-rainbow (2.0.4-1)
clustering and assembling short reads for bioinformatics
biogenesis (0.8-2)
artificial life program that simulates evolution of organisms
biomaj (1.2.3-9)
biological data-bank updater
biomaj-properties (1.2.3-9)
biological data-bank updater - example properties files
biomaj-watcher (1.2.2-3) [contrib]
biological data-bank updater - web interface
bioperl (1.6.924-4)
Perl tools for computational molecular biology
bioperl-run (1.6.9-3)
BioPerl wrappers: scripts
biosig-tools (1.4.1-1b2)
format conversion tools for biomedical data formats
biosquid (1.9g+cvs20050121-5)
utilities for biological sequence analysis
bist (0.5.2-1.1)
chemical drawing tool
bkchem (0.13.0-5)
Chemical structures editor
blasr (0~20151014+git8e668be-1)
mapping single-molecule sequencing reads
blast2 (1:
Basic Local Alignment Search Tool
blimps-utils (3.9-1) [non-free]
blocks database improved searcher
bmt (0.6-1)
software analysis benchmarking toolkit
bodr (10-1)
Blue Obelisk Data Repository
boinc-app-seti (8.00~svn3363-2)
SETI@home application for the BOINC client
boinc-app-seti-graphics (8.00~svn3363-2)
SETI@home application for the BOINC client (with graphics)
boolector (
SMT solver for bit-vectors and arrays
bowtie (1.1.2-4)
Ultrafast memory-efficient short read aligner
bowtie-examples (1.1.2-4)
Examples for bowtie, the ultrafast memory-efficient short read aligner
bowtie2 (2.2.9-2 [amd64], 2.1.0-2 [i386])
ultrafast memory-efficient short read aligner
bowtie2-examples (2.2.9-2)
Examples for bowtie2
boxshade (3.3.1-9)
Pretty-printing of multiple sequence alignments
brig (0.95+dfsg-1)
BLAST Ring Image Generator
bwa (0.7.15-2 [amd64], 0.6.2-1 [i386])
Burrows-Wheeler Aligner
cafeobj (1.5.4-4)
new generation algebraic specification and programming language
cafeobj-mode (1.5.4-4)
Emacs major mode for editing CafeOBJ source code
cain (1.10+dfsg-2)
simulations of chemical reactions
cain-examples (1.10+dfsg-2)
examples for cain
cain-solvers (1.10+dfsg-2)
solvers for cain
calculix-ccx (2.10-1)
Three-Dimensional Structural Finite Element Program
calculix-cgx (2.10.1+dfsg-1)
Calculix cgx is a 3-dimensional pre- and post-processor for fem
cassiopee (1.0.4+dfsg-1)
index and search tool in genomic sequences
cba (0.3.6-4.1b1)
Continuous Beam Analysis
cbflib-bin (
utilities to manipulate CBF files
cbmc (5.4-2)
bounded model checker for C and C++ programs
cclib (1.3.1-1)
Parsers and algorithms for computational chemistry
cclib-data (1.1-1) [non-free]
Parsers and algorithms for computational chemistry (data files)
cd-hit (4.6.5-2)
suite of programs designed to quickly group sequences
cdbfasta (0.99-20100722-2)
Constant DataBase indexing and retrieval tools for multi-FASTA files
cernlib (20061220+dfsg3-4.2)
CERNLIB data analysis suite - general use metapackage
cernlib-core (20061220+dfsg3-4.2)
CERNLIB data analysis suite - main libraries and programs
cernlib-extras (20061220+dfsg3-4.2)
CERNLIB data analysis suite - extra programs
cernlib-montecarlo (20061220+dfsg3-3)
CERNLIB Monte Carlo libraries
cg3 (0.9.9~r11624-1)
Tools for using the 3rd edition of Constraint Grammar (CG-3)
cgns-convert (
CFD General Notation System - Conversion tools
cgview (0.0.20100111-1)
Circular Genome Viewer
chemical-structures (2.2.dfsg.0-12)
set of molecular structures in open formats
chemps2 (1.7-1)
Executable to call libchemps2-2 from the command line
chemtool (1.6.14-1)
chemical structures drawing program
chimeraslayer (20101212+dfsg1-1)
detects likely chimeras in PCR amplified DNA
choreonoid (1.1.0+dfsg-6.2b1)
Integrated robotics GUI environment
choreonoid-data (1.1.0+dfsg-6.2b1)
Integrated robotics GUI environment - shared data
choreonoid-plugins-base (1.1.0+dfsg-6.2b1)
Integrated robotics GUI environment - core plug-ins
circlator (1.2.1-1)
circularize genome assemblies
circos (0.69.2+dfsg-1)
plotter for visualizing data
circos-tools (0.21-1)
plotter for visualizing data - helper utilities
ckon (0.7.1-3)
automatic build tool for ROOT data analysis software
clearcut (1.0.9-1)
extremely efficient phylogenetic tree reconstruction
clonalframe (1.2-4)
inference of bacterial microevolution using multilocus sequence data
clustalo (1.2.1-2)
General purpose multiple sequence alignment program for proteins
clustalw (2.1+lgpl-4b1)
global multiple nucleotide or peptide sequence alignment
clustalx (2.1+lgpl-4)
Multiple alignment of nucleic acid and protein sequences (graphical interface)
cluster3 (1.52a-1) [non-free]
Reimplementation of the Eisen-clustering software
cmor-tables (1.0-1)
MIP tables for the Climate Model Output Rewriter library
cmtk (3.2.2-1.4b2)
Computational Morphometry Toolkit
code-aster-gui (1.13.1-2)
Graphical user interface for Code_Aster - client
code-aster-run (1.13.1-2)
Graphical user interface for Code_Aster - server
codonw (1.4.4-3)
Correspondence Analysis of Codon Usage
coinor-cbc (2.8.12-1b1)
Coin-or branch-and-cut mixed integer programming solver
coinor-clp (1.15.10-1b1)
Coin-or linear programming solver
coinor-csdp (6.1.1-1)
A software package for semidefinite programming
coinor-libcbc3 (2.8.12-1b1)
Coin-or branch-and-cut mixed integer programming solver (shared libraries)
coinor-libcgl1 (0.58.9-1b1)
COIN-OR Cut Generation Library
coinor-libclp1 (1.15.10-1b1)
Coin-or linear programming solver (shared libraries)
coinor-libcoinutils3v5 (2.9.15-3.1b1)
Coin-or collection of utility classes (binaries and libraries)
coinor-libdylp0 (1.6.0-1.1)
Linear programming solver using the dynamic simplex algorithm
coinor-libflopc++0 (1.0.6-3.1b2)
Formulation of Linear Optimization Problems in C++
coinor-libosi1v5 (0.106.9-2b1)
COIN-OR Open Solver Interface
coinor-libsymphony3 (5.6.1-1b1)
COIN-OR solver for mixed-integer linear programs (shared libraries)
coinor-libvol0 (1.1.7-1b1)
Coin-or linear programming solver
coinor-symphony (5.6.1-1b1)
COIN-OR solver for mixed-integer linear programs
comet-ms (2014022-3b1)
Tandem mass spectrometry (MS/MS) search engine
concavity (0.1+dfsg.1-1)
predictor of protein ligand binding sites from structure and conservation
condor (8.4.2~dfsg.1-1)
transitional dummy package
connectome-workbench (1.2.0-1)
brain visualization, analysis and discovery tool
conservation-code (20110309.0-4)
protein sequence conservation scoring tool
cp2k (3.0.0-1)
Ab Initio Molecular Dynamics
cp2k-data (3.0.0-1)
Ab Initio Molecular Dynamics (data files)
cpl-plugin-amber (4.3.4+dfsg-1)
ESO data reduction pipeline for the AMBER instrument
cpl-plugin-amber-calib (4.3.4+dfsg-1) [contrib]
ESO data reduction pipeline calibration data downloader for AMBER
cpl-plugin-fors (5.3.5+dfsg-1)
ESO data reduction pipeline for the FORS1/2 instruments
cpl-plugin-fors-calib (5.3.5+dfsg-1) [contrib]
ESO data reduction pipeline calibration data downloader for FORS2
cpl-plugin-giraf (2.14.3+dfsg-1)
ESO data reduction pipeline for the GIRAFFE instrument
cpl-plugin-giraf-calib (2.14.3+dfsg-1) [contrib]
ESO data reduction pipeline calibration data downloader for GIRAFFE
cpl-plugin-hawki (1.8.21+dfsg-1)
ESO data reduction pipeline for the HAWK-I instrument
cpl-plugin-hawki-calib (1.8.21+dfsg-1)
ESO data reduction pipeline calibration data downloader for HAWK-I
cpl-plugin-kmos (1.3.19+dfsg-1)
ESO data reduction pipeline for the KMOS instrument
cpl-plugin-kmos-calib (1.3.19+dfsg-1) [contrib]
ESO data reduction pipeline calibration data downloader for KMOS
cpl-plugin-muse (1.6+dfsg-2)
ESO data reduction pipeline for the MUSE instrument
cpl-plugin-muse-calib (1.6+dfsg-2) [contrib]
ESO data reduction pipeline calibration data downloader for MUSE
cpl-plugin-naco (4.4.1+dfsg-3)
ESO data reduction pipeline for the NaCo instrument
cpl-plugin-naco-calib (4.4.1+dfsg-3) [contrib]
ESO data reduction pipeline NaCo calibration data downloader
cpl-plugin-sinfo (2.9.0+dfsg-1)
ESO data reduction pipeline for the SINFONI instrument
cpl-plugin-sinfo-calib (2.9.0+dfsg-1) [contrib]
ESO data reduction pipeline calibration data downloader for SINFONI
cpl-plugin-uves (5.7.0+dfsg-1)
ESO data reduction pipeline for the UVES instrument
cpl-plugin-uves-calib (5.7.0+dfsg-1) [contrib]
ESO data reduction pipeline calibration data downloader for UVES
cpl-plugin-vimos (3.1.4+dfsg-1)
ESO data reduction pipeline for the VIMOS instrument
cpl-plugin-vimos-calib (3.1.4+dfsg-1) [contrib]
ESO data reduction pipeline calibration data downloader for VIMOS
cpl-plugin-visir (4.2.0+dfsg-1)
ESO data reduction pipeline for the VISIR instrument
cpl-plugin-visir-calib (4.2.0+dfsg-1) [contrib]
ESO data reduction pipeline calibration data downloader for VISIR
cpl-plugin-xshoo (2.7.1+dfsg-2)
ESO data reduction pipeline for the XSHOOTER instrument
cpl-plugin-xshoo-calib (2.7.1+dfsg-2) [contrib]
ESO data reduction pipeline calibration data downloader for XSHOOTER
critterding (1.0-beta12.1-1.2b1)
Evolving Artificial Life
ctsim (5.2.0-2.1b3)
Computed tomography simulator
ctsim-help (5.2.0-2.1b3)
Online help file for CTSim
cutadapt (1.10-2)
Clean biological sequences from high-throughput sequencing reads
cwltool (1.0.20160209222805-1)
Common workflow language reference implementation
daligner (1.0+20151214-1)
local alignment discovery between long nucleotide sequencing reads
dans-gdal-scripts (0.23-6)
GDAL contributed tools by Geographic Information Network of Alaska
datalad (0.2.2-1)
data files crawler and data distribution
dawg (1.2-1)
program to simulate the evolution of recombinant DNA sequences
dazzdb (1.0-1)
manage nucleotide sequencing read data
dcmtk (3.6.1~20150924-5b2)
OFFIS DICOM toolkit command line utilities
dialign (2.2.1-7)
Segment-based multiple sequence alignment
dialign-tx (1.0.2-8)
Segment-based multiple sequence alignment
dialign-tx-data (1.0.2-8)
Segment-based multiple sequence alignment (data files)
dicomnifti (2.32.1-1b1)
converts DICOM files into the NIfTI format
dicompyler (0.4.2-3)
radiation therapy research platform
dimbl (0.12-2b2)
Distributed Memory Based Learner
dindel (1.01+dfsg-1)
determines indel calls from short-read data
discosnp (1.2.6-1)
discovering Single Nucleotide Polymorphism from raw set(s) of reads
disulfinder (1.2.11-5)
cysteines disulfide bonding state and connectivity predictor
disulfinder-data (1.2.11-5)
data files for predictor of disulfide bonds in proteins
dnaclust (3-3)
tool for clustering millions of short DNA sequences
doris (4.06~beta2+dfsg-3b1) [contrib]
Delft object-oriented radar interferometric software
dozzaqueux (3.42-1)
simulator for chemical mixtures
dozzaqueux-data (3.42-1)
databases for chemical mixtures
drawxtl (5.5-3b1)
crystal structure viewer
drslib (0.3.0a3-5)
Command-line tools for the Data Reference Syntax library
dsdp (5.8-9.1)
Software for Semidefinite Programming
dssp (2.2.1-3)
protein secondary structure assignment based on 3D structure
dwgsim (0.1.11-3)
short sequencing read simulator
dx (1:4.4.4-9)
OpenDX (IBM Visualization Data Explorer) - main package
dxsamples (4.4.0-2)
Sample programs for the OpenDX Data Explorer
e00compr (1.0.1-3)
Program to read/write Arcinfo compressed E00 files
ea-utils (1.1.2+dfsg-3)
command-line tools for processing biological sequencing data
easychem (0.6-8)
Draw high-quality molecules and 2D chemical formulas
ecaccess (4.0.1-1)
clients to access ECMWF facilities
ecopcr (0.5.0-1)
estimate PCR barcode primers quality
edfbrowser (1.57-1)
viewer for biosignal storage files such as bdf and edf
edtsurf (0.2009-3b1)
triangulated mesh surfaces for protein structures
eficas (6.4.0-1-1.1)
Graphical editor for Code Aster command files
eigensoft (6.0.1+ds-1) [non-free]
reduction of population bias for genetic analyses
elk-lapw (2.3.22-1)
All-Electron Density-Functional Electronic Structure Code
embassy-domainatrix (0.1.650-1)
Extra EMBOSS commands to handle domain classification file
embassy-domalign (0.1.650-1)
Extra EMBOSS commands for protein domain alignment
embassy-domsearch (1:0.1.650-1)
Extra EMBOSS commands to search for protein domains
embassy-phylip (3.69.650-2) [non-free]
EMBOSS conversions of the programs in the phylip package
emboss (6.6.0+dfsg-3b1)
European molecular biology open software suite
emboss-data (6.6.0+dfsg-3b1)
data files for the EMBOSS package
emboss-explorer (2.2.0-8)
web-based GUI to EMBOSS
emboss-lib (6.6.0+dfsg-3b1)
EMBOSS Libraries
engauge-digitizer (7.2-2)
interactively extracts numbers from bitmap graphs or maps
ent (1.2debian-1)
pseudorandom number sequence test program
epsilon-bin (0.9.2+dfsg-2)
Library for wavelet image compression - tools
ergo (3.4.0-2)
Quantum chemistry program for large-scale calculations
eso-midas (15.09pl1.0-1)
European Southern Observatory Munich Image Data Analysis System
eso-pipelines (1.1)
ESO VLT Instrument pipeline collection
esorex (3.12.3-1b2)
Execution Tool for European Southern Observatory pipelines
esys-particle (2.3.3+dfsg1-2)
Software for particle-based numerical modelling. MPI version.
etsf-io (1.0.4-1.1)
Binary tools to check, merge and read ETSF files
exonerate (2.4.0-2)
generic tool for pairwise sequence comparison
expeyes-clib (4.1.1+dfsg-2)
hardware & software framework for developing science experiments
fastaq (3.12.1-1)
FASTA and FASTQ file manipulation tools
fastdnaml (1.2.2-11)
Tool for construction of phylogenetic trees of DNA sequences
fastlink (4.1P-fix100+dfsg-1)
faster version of pedigree programs of Linkage
fastml (3.1-3)
maximum likelihood ancestral amino-acid sequence reconstruction
fastqtl (2.184+dfsg-3)
Quantitative Trait Loci (QTL) mapper in cis for molecular phenotypes
fasttree (2.1.9-1)
phylogenetic trees from alignments of nucleotide or protein sequences
fastx-toolkit (0.0.14-1b1)
FASTQ/A short nucleotide reads pre-processing tools
fcc (2.8-1)
Script to compile C/C++ programs and link to Fortran libraries
feedgnuplot (1.37-1)
Pipe-oriented frontend to Gnuplot
ffindex (
simple index/database for huge amounts of small files
figtree (1.4.2+dfsg-2)
graphical phylogenetic tree viewer
filo (1.1.0-3)
FILe and stream Operations
fitgcp (0.0.20130418-2)
fitting genome coverage distributions with mixture models
fitscut (1.4.4-4)
Extract cutouts from FITS image format files
fitspng (0.3.5-1)
FITS to PNG converter
fitsverify (4.18-1)
FITS File Format-Verification Tool
fityk (1.2.1-0.1b1)
general-purpose nonlinear curve fitting and data analysis
flexbar (2.50-2)
flexible barcode and adapter removal for sequencing platforms
flextra (5.0-4)
Trajectory model for tracing air transport phenomena
foma-bin (0.9.18+r243-1)
Xerox-compatible finite-state compiler - library
fractalnow (0.8.1-1b2)
Fast, advanced fractal generator
Free42 is a re-implementation of the HP-42S calculator
freecad (0.16+dfsg2-1)
Extensible Open Source CAx program (alpha)
freecontact (1.0.21-4)
fast protein contact predictor
freediams (0.9.4-1b1)
pharmaceutical drug prescription and interaction manager
freemedforms-common-resources (0.9.4-1b1)
common data for the FreeMedForms project applications
freemedforms-emr (0.9.4-1b1)
electronic medical record manager
freemedforms-emr-resources (0.9.4-1b1)
data for the FreeMedForms EMR
freemedforms-freedata (0.9.4-1b1)
free extra-data for the FreeMedForms project
freemedforms-i18n (0.9.4-1b1)
translations of the FreeMedForms project
freemedforms-libs (0.9.4-1b1)
common libs for the FreeMedForms project
freemedforms-project (0.9.4-1b1)
FreeMedForms project
freemedforms-theme (0.9.4-1b1)
theme for the FreeMedForms project
frog (0.12.20-1)
tagger and parser for natural languages (runtime)
frogdata (0.4-1)
Data files for Frog
fsa (1.15.9+dfsg-1)
Fast Statistical Alignment of protein, RNA or DNA sequences
fsm-lite (1.0-2)
frequency-based string mining (lite)
ftools-fv (5.4+dfsg-1b2)
Tool for viewing and editing FITS format files
ftools-pow (5.4+dfsg-1b2)
Curve plotting and image display interface tool
funtools (1.4.6+git150811-2)
Minimal buy-in FITS utility package
fxt-tools (0.3.1-1)
Multithreaded tracing library
g3data (1:1.5.3-2.1)
extract data from scanned graphs
gabedit (2.4.8-2)
graphical user interface to Ab Initio packages
galileo (0.5.0~git160510-1)
Utility to securely synchronize a Fitbit device with the Fitbit web service
gamgi (0.17.1-1)
General Atomistic Modelling Graphic Interface (GAMGI)
gamgi-data (0.17.1-1)
General Atomistic Modelling Graphic Interface (data)
garli (2.1-1)
phylogenetic analysis of molecular sequence data using maximum-likelihood
garli-examples (2.1-1)
phylogenetic analysis of molecular sequence data using maximum-likelihood (examples)
garlic (1.6-1.1)
A visualization program for biomolecules
gasic (0.0.r18-3)
genome abundance similarity correction
gausssum (3.0.1-1)
parse and display Gaussian, GAMESS, and etc's output
gbrowse (2.54+dfsg-6b1)
GMOD Generic Genome Browser
gbrowse-calign (2.54+dfsg-6b1)
CAlign helper
gbrowse-data (2.54+dfsg-6b1)
Sample data to use GBrowse
gbutils (5.6.8-1)
utilities for command line econometrics
gchempaint (0.14.10-2b1)
2D chemical structures editor for the GNOME2 desktop
gcrystal (0.14.10-2b1)
lightweight crystal structures visualizer
gcu-bin (0.14.10-2b1)
GNOME chemistry utils (helper applications)
gcu-plugin (0.14.10-2b1)
GNOME chemistry utils (browser plugin)
gcx (1.3-1.1)
astronomical image processing and photometry gtk+ application
gdal-bin (2.1.0+dfsg-3)
Geospatial Data Abstraction Library - Utility programs
gdis (0.90-5)
molecular and crystal model viewer
gdis-data (0.90-5)
molecular and crystal model viewer (data files)
gdpc (2.2.5-4)
visualiser of molecular dynamic simulations
gdpc-examples (2.2.5-4)
example files for the gdpc program
geant321 (1:3.21.14.dfsg-11b2)
[Physics] Particle detector description and simulation tool
geant321-data (1:3.21.14.dfsg-11b2)
[Physics] Data for GEANT 3.21 detector simulator
gelemental (1.2.0-9b1)
Periodic Table viewer
genometools (1.5.8+ds-3)
versatile genome analysis toolkit
genometools-common (1.5.8+ds-3)
shared data files for GenomeTools
gentle (1.9+cvs20100605+dfsg1-4)
suite to plan genetic cloning
geographiclib-tools (1.46-2)
C++ library to solve some geodesic problems -- tools
geotiff-bin (1.4.1-3)
GeoTIFF (geografic enabled TIFF) library -- tools
gerris (20131206+dfsg-9)
Fluid Flow Solver
getdata (0.2-1)
management of external databases
gff2aplot (2.0-8)
pair-wise alignment-plots for genomic sequences in PostScript
gff2ps (0.98d-5)
produces PostScript graphical output from GFF-files
gfsview (20121130+dfsg-2)
graphical viewer for Gerris simulation files
gfsview-batch (20121130+dfsg-2)
batch-version of viewer for Gerris simulation files
ghkl (
diffractometer computation control application
giella-core (0.1.1~r129227+svn121148-1)
GTCORE files for building Giellatekno language packages
giella-sme (0.0.20150917~r121176-1)
Giellatekno single language data for North Saami
giella-sme-dev (0.0.20150917~r121176-1)
Giellatekno single language data for North Saami (dev extras)
giira (0.0.20140210-2b1)
RNA-Seq driven gene finding incorporating ambiguous reads
ginga (2.5.20160603104100-1)
Astronomical image viewer
glam2 (1064-3)
gapped protein motifs from unaligned sequences
gliese (3.0.95-2) [non-free]
stellar data set from the Third Catalogue of Nearby Stars
gmap (2016-06-09-1) [non-free]
spliced and SNP-tolerant alignment for mRNA and short reads
gmt (5.2.1+dfsg-6)
Generic Mapping Tools
gmt-common (5.2.1+dfsg-6)
Generic Mapping Tools - Architecture-independent files
gmt-dcw (1.1.2-1)
Digital Chart of the World (DCW) for GMT
gmt-gshhg (2.3.5-1)
Global Self-consistent Hierarchical High-resolution Geography (GSHHG)
gmt-gshhg-full (2.3.5-1)
Full resolution coastlines for the Generic Mapping Tools
gmt-gshhg-high (2.3.5-1)
High resolution coastlines for the Generic Mapping Tools
gmt-gshhg-low (2.3.5-1)
Low resolution coastlines for the Generic Mapping Tools
gpaw (1.0.0-2)
DFT and beyond within the projector-augmented wave method
gpaw-data (0.9.20000-1)
gpaw datasets/setups
gperiodic (2.0.10-7)
periodic table application
gpx (2.5.2-1)
Gcode to x3g conversion post processor
gpx2shp (0.71.0-3)
convert GPS or GPX file to ESRI Shape file
gr-fcdproplus (3.7.24.cf5db38-5)
Funcube Dongle Pro Plus controller for GNU Radio
graphlan (1.1-1)
circular representations of taxonomic and phylogenetic trees
grass-core (7.0.4-2)
GRASS GIS core components
grass-gui (7.0.4-2)
GRASS GIS graphical user interfaces
gravit (0.5.1+dfsg-2b2)
visually stunning gravity simulator
gravit-data (0.5.1+dfsg-2b2)
data files for Gravit
gri (2.12.23-9b2 [i386], 2.12.23-9 [amd64])
a language for scientific illustration
grinder (0.5.4-1)
Versatile omics shotgun and amplicon sequencing read simulator
gromacs (5.1.2-1)
Molecular dynamics simulator, with building and analysis tools
gromacs-data (5.1.2-1)
GROMACS molecular dynamics sim, data and documentation
gromacs-mpich (5.1.2-1)
Molecular dynamics sim, binaries for MPICH parallelization
gromacs-openmpi (5.1.2-1)
Molecular dynamics sim, binaries for OpenMPI parallelization
gubbins (1.4.9-1)
phylogenetic analysis of genome sequences
gvb (1.4-1)
visual simulator of 1 and 2-dimensional vibrations
gwama (2.1+dfsg-2)
Genome-Wide Association Meta Analysis
gwyddion (2.45-1)
Scanning Probe Microscopy visualization and analysis tool
gwyddion-common (2.45-1)
architecture-independent files for Gwyddion SPM analysis tool
gwyddion-plugins (2.45-1)
plugins for Gwyddion SPM analysis tool
gyoto (1.0.2-2b2)
General relativistic ray-tracing
h5utils (1.12.1-6)
HDF5 files visualization tools
harminv (1.4-1b1)
extraction of complex frequencies and amplitudes from time series
harvest-tools (1.2-2)
archiving and postprocessing for reference-compressed genomic multi-alignments
hdf5-helpers (1.8.16+docs-8)
Hierarchical Data Format 5 (HDF5) - Helper tools
hdf5-tools (1.8.16+docs-8)
Hierarchical Data Format 5 (HDF5) - Runtime tools
herisvm (0.7.0-1)
machine learning tools for classification algorithms
hfst (3.9.0~r4595-3b2)
Helsinki Finite-State Transducer Technology
hfst-ospell (0.4.0~r4643-4)
Spell checker library and tool based on HFST
hhsuite (2.0.16-6)
sensitive protein sequence searching based on HMM-HMM alignment
hhsuite-data (2.0.16-6)
sensitive protein sequence searching based on HMM-HMM alignment (data)
hidrd (0.2.0-11)
tools for parsing and generating HID report descriptors
hmmer (3.1b2-2)
profile hidden Markov models for protein sequence analysis
hmmer2 (2.3.2-11)
profile hidden Markov models for protein sequence analysis
hmmer2-pvm (2.3.2-11)
HMMER programs with PVM (Parallel Virtual Machine) support
hodie (1.5-2)
prints the date in latin
horae (071~svn537-2) [contrib]
interactive graphical processing and analysis of EXAFS data
hpcc (1.4.3-1b2)
HPC Challenge benchmark
htcondor (8.4.2~dfsg.1-1)
distributed workload management system
hyantesite (1.3.0-1)
geomatic tool to compute neighbourhood population potential
hyphy-common (2.2.6+dfsg-3b4)
Hypothesis testing using Phylogenies (common files)
hyphy-mpi (2.2.6+dfsg-3b4)
Hypothesis testing using Phylogenies (MPI version)
hyphy-pt (2.2.6+dfsg-3b4)
Hypothesis testing using Phylogenies (pthreads version)
hyphygui (2.2.6+dfsg-3b4)
Hypothesis testing using Phylogenies (GTK+ gui)
idba (1.1.2-1b1)
iterative De Bruijn Graph De Novo short read assembler for transcriptome
ifeffit (2:1.2.11d-10b1) [contrib]
Interactive XAFS analysis program
ifrit (4.1.2-5)
powerful tool for visualizing 3-dimensional data sets
igv (2.3.68+dfsg-1) [non-free]
Integrative Genomics Viewer
imagej (1.50i+dfsg-1)
Image processing program inspired by NIH Image
imagevis3d (3.1.0-4b2)
desktop volume rendering application for large data
imview (1.1.9c-16 [i386], 1.1.9c-12b3 [amd64])
Image viewing and analysis application
indelible (1.03-2)
powerful and flexible simulator of biological evolution
indigo-utils (1.1.12-1.1)
Organic Chemistry Toolkit Utilities
infernal (1.1.1-5)
inference of RNA secondary structural alignments
ipig (0.0.r5-2)
integrating PSMs into genome browser visualisations
iqtree (
efficient phylogenetic software by maximum likelihood
ismrmrd-schema (1.3.2-3)
ISMRM Raw Data format (ISMRMRD) - XML schema
ismrmrd-tools (1.3.2-3)
ISMRM Raw Data format (ISMRMRD) - binaries
iva (1.0.6+ds-1)
iterative virus sequence assembler
jaligner (1.0+dfsg-3)
Smith-Waterman algorithm with Gotoh's improvement
jalview (2.7.dfsg-5)
multiple alignment editor
jblas (1.2.3-6)
fast linear algebra library for Java
jellyfish (2.2.5-1)
count k-mers in DNA sequences
jellyfish-examples (2.2.5-1)
count k-mers in DNA sequences (examples for testing)
jemboss (6.6.0+dfsg-3b1)
graphical user interface to EMBOSS
jmodeltest (2.1.10+dfsg-2)
HPC selection of models of nucleotide substitution
jmol (12.2.32+dfsg2-1)
Molecular Viewer
julia (0.4.6-1 [i386], 0.3.12-2b2 [amd64])
high-performance programming language for technical computing
julia-common (0.3.12-2b2)
high-performance programming language for technical computing (common files)
kalign (1:2.03+20110620-2)
Global and progressive multiple sequence alignment
kalzium (4:16.04.0-1)
periodic table and chemistry tools
kalzium-data (4:16.04.0-1)
data files for Kalzium
khmer (2.0+dfsg-7)
in-memory DNA sequence kmer counting, filtering & graph traversal
khmer-common (2.0+dfsg-7)
common files for the khmer project tools
kineticstools (0.5.1+20150828+git3aa3d96+dfsg-2)
detection of DNA modifications
kineticstools-data (0.5.1+20150828+git3aa3d96+dfsg-2)
detection of DNA modifications -- data files
king-probe (2.13.110909-2)
Evaluate and visualize protein interatomic packing
kissplice (2.3.1-1 [amd64], 2.1.0-1 [i386])
Detection of various kinds of polymorphisms in RNA-seq data
klustakwik (2.0.1-1b1)
automatic sorting of the samples (spikes) into clusters
kmc (2.3+dfsg-5)
count kmers in genomic sequences
konclude (0.6.2~dfsg-2)
tableau-based description logic reasoner for the semantic web
kraken (0.10.5~beta-2)
assigning taxonomic labels to short DNA sequences
kst (2.0.3-5b2)
scientific data plotting tool
kst-data (2.0.3-5b2)
set of data files for kst
kstars (4:15.08.3-1b2)
desktop planetarium for KDE
kstars-data (4:15.08.3-1b2)
data files for KStars desktop planetarium
kstars-data-extra-tycho2 (1.1r1-9) [non-free]
Tycho-2 star catalog for KStars
kxterm (20061220+dfsg3-4.2)
CERNLIB data analysis suite - KUIP terminal emulator
lammps (0~20151117.gite3c4db7-3)
Molecular Dynamics Simulator
last-align (737-1)
genome-scale comparison of biological sequences
lbt (1.2.2-5b1)
converts from LTL formulas to Büchi automata
lhapdf-pdfsets-minimal (5.9.1-4b2)
Minimal PDF Sets of LHAPDF
libadios-bin (1.9.0-11)
ADIOS Adaptable IO system for simulations - binaries
libapertium3-3.4-0 (3.4.0~r61013-5)
Shared library for Apertium
libcassie1v5 (1.0.4+dfsg-1)
library implementating search algorithms
libcg3-0 (0.9.9~r11624-1)
Runtime for CG-3
libclblas-bin (2.10-3)
OpenCL BLAS library (executables)
libclhep2.1v5 (
CLHEP: A Class Library for High Energy Physics
libdivsufsort3 (2.0.1-2)
fast suffix array construction
libdynamicedt3d1.6 (1.6.8+dfsg-3)
Incrementally updatable Euclidean distance transform library
libdynamicedt3d1.8 (1.8.0+dfsg-2)
Incrementally updatable Euclidean distance transform library
libej0 (4.1.1+dfsg-2)
hardware & software framework for developing science experiments
libgeotiff-epsg (1.4.1-3) [non-free]
GeoTIFF library -- EPSG Geodetic Parameter Dataset
libgfsgl0 (20121130+dfsg-2)
graphical viewer for Gerris simulation files. Shared library
libghemical-data (3.0.0-4.1b1)
Molecular Modelling Library (data files)
libgnuradio-fcdproplus0 (3.7.24.cf5db38-5)
Funcube Dongle Pro Plus controller for GNU Radio
libgrits5 (0.8.1-2)
Grits is a Virtual Globe library
libgyoto4 (1.0.2-2b2)
General relativistic geodesic integration and ray-tracing
libhfst42 (3.9.0~r4595-3b2)
Helsinki Finite-State Transducer Technology Libraries
libhfstospell5 (0.4.0~r4643-4)
HFST spell checker runtime libraries
libismrmrd1.3 (1.3.2-3)
ISMRM Raw Data format (ISMRMRD) - shared library
libjs-mgrs (0.0.3-2)
Javascript for converting between WGS84 lat/lng and MGRS coordinates
libjs-proj4 (2.3.14+ds-1)
JavaScript library to transform point coordinates systems
libkst2core2 (2.0.3-5b2)
kst core library
libkst2math2 (2.0.3-5b2)
kst math library
libkst2widgets2 (2.0.3-5b2)
kst widgets library
liblas-bin (1.8.0-10)
ASPRS LiDAR data translation toolset
libliggghts3 (3.3.1+repack1-1)
Open Source DEM Particle Simulation Software. Shared library
liblinear-tools (2.1.0+dfsg-1)
Standalone applications for LIBLINEAR
liblttoolbox3-3.3-0v5 (3.3.3~r68466-2)
Shared library for lttoolbox
libmed-tools (3.0.6-9)
Runtime tools to handle MED files
libncarg-bin (6.3.0-8b2)
NCAR command-language library - development tools
libncarg-data (6.3.0-8b2)
NCAR command-language library - Data
libngram-tools (1.3.0-1)
OpenGRM n-gram Language Modeling toolkit
libocas-tools (0.97+dfsg-3)
Standalone applications implementing the OCAS solver
liboctomap1.6v5 (1.6.8+dfsg-3)
3D occupancy grid mapping approach library for mapping
liboctomap1.8 (1.8.0+dfsg-2)
3D occupancy grid mapping approach library for mapping
liboctovis1.6v5 (1.6.8+dfsg-3)
Visualization library for OctoMap
liboctovis1.8 (1.8.0+dfsg-2)
Visualization library for OctoMap
libopengm-bin (2.3.6+20160131-2)
command line tools for OpenGM
libpwiz-tools (3.0.9393-1)
ProteoWizard command line tools
librasterlite2-1 (1.0.0~rc0+devel1-3)
library for huge raster coverages using a SpatiaLite DBMS
librsl1 (1.43-1b1)
TRMM Radar Software Library
libsilo-bin (4.10.2-5)
Utilities to manipulate libsilo files
libsimgrid3.12 (3.12-2)
Toolkit for scalable simulation of distributed applications
libstxxl1v5 (1.4.1-2)
C++ Standard Template Library for extra large datasets
libxy-bin (1.3-1.1b1)
xylib - utilities
libyade (1.20.0-10 [i386], 1.20.0-7 [amd64])
Platform for discrete element modeling. Libraries
liggghts (3.3.1+repack1-1)
Open Source DEM Particle Simulation Software.
litl-tools (0.1.8-2)
Lightweight Trace Library - tools
logcentral (2.7-1.1b1)
Logging service for distributed applications
logcentral-tools (2.7-1.1b1)
Logging service for distributed applications
logol (1.7.4-1)
Pattern matching tool using Logol language
logol-bin (1.7.4-1)
Pattern matching tool using Logol language
loki (
MCMC linkage analysis on general pedigrees
looptools (2.8-1)
Integral Evaluator of One-loop Feynman Diagram
ltrsift (1.0.2-7)
postprocessing and classification of LTR retrotransposons
ltrsift-examples (1.0.2-7)
example data for LTRsift
lttoolbox-dev (3.3.3~r68466-2)
Development tools and library for lttoolbox
lutefisk (1.0.7+dfsg-4)
de novo interpretation of peptide CID spectra
macs (
Model-based Analysis of ChIP-Seq on short reads sequencers
macsyfinder (1.0.2-1)
Detection of macromolecular systems in protein datasets.
maffilter (1.1.0-1+dfsg-2)
process genome alignment in the Multiple Alignment Format
maffilter-examples (1.1.0-1+dfsg-2)
process genome alignment in the Multiple Alignment Format (example data)
mafft (7.294-1)
Multiple alignment program for amino acid or nucleotide sequences
maq (0.7.1-6)
maps short fixed-length polymorphic DNA sequence reads to reference sequences
maqview (0.2.5-7)
graphical read alignment viewer for short gene sequences
massxpert (3.6.0-1)
linear polymer mass spectrometry software
massxpert-data (3.6.0-1)
linear polymer mass spectrometry software - arch-indep data
matlab-gdf (0.1.2-2) [contrib]
IO library for the GDF -- Matlab interface
maude (2.7-2)
high-performance logical framework
mauve-aligner (2.4.0+4734-3)
multiple genome alignment
mayavi2 (4.4.3-2.1)
scientific visualization package for 2-D and 3-D data
mbt (3.2.10-5b1)
memory-based tagger-generator and tagger
mbtserver (0.9-1)
Server extensions for the MBT tagger
meep (1.3-4)
software package for FDTD simulation
meep-lam4 (1.3-2)
software package for FDTD simulation, parallel (OpenMPI) version
meep-mpi-default (1.3-3)
software package for FDTD simulation, parallel (OpenMPI) version
meep-mpich2 (1.3-3b2)
software package for FDTD simulation, parallel (OpenMPI) version
meep-openmpi (1.3-3)
software package for FDTD simulation, parallel (OpenMPI) version
melting (4.3.1+dfsg-2)
compute the melting temperature of nucleic acid duplex
melting-gui (4.3.1+dfsg-2)
graphical interface to compute the melting temperature of nucleic acid duplex
merkaartor (0.18.2-7)
map editor for OpenStreetMap.org
metastudent (2.0.1-1)
predictor of Gene Ontology terms from protein sequence
metastudent-data (2.0.0-3)
predictor of Gene Ontology terms from protein sequence - data files
metastudent-data-2 (1.0.0-2)
predictor of Gene Ontology terms from protein sequence - data #2
mgltools-bhtree (1.5.7~rc1+cvs.20140424-1) [non-free]
Bhtree library extension module
mgltools-cadd (1.5.7~rc1+cvs.20140424-1) [non-free]
Computer Aided Drug Discovery (CADD) Pipeline
mgltools-cmolkit (1.5.7~rc1+cvs.20140424-1) [non-free]
Python classes to interpret trajectories of Gromacs
mgltools-dejavu (1.5.7~rc1+cvs.20140424-1) [non-free]
visualization of 3D geometry using the OpenGL with Python
mgltools-geomutils (1.5.7~rc1+cvs.20140424-1b1) [non-free]
Python library for geometric analyses
mgltools-mglutil (1.5.7~rc1+cvs.20140424-1) [non-free]
Molecular Graphics Laboratory utility collection
mgltools-molkit (1.5.7~rc1+cvs.20140424-1) [non-free]
Python classes to read and manipulate molecules
mgltools-networkeditor (1.5.7~rc1+cvs.20140424-1) [non-free]
Python GUI library for the editing of networks
mgltools-opengltk (1.5.7~rc1+cvs.20140424-1) [non-free]
Opengltk Python extension
mgltools-pmv (1.5.7~rc1+cvs.20140424-2) [non-free]
Python-based Molecular Viewer
mgltools-pmv-test (1.5.7~rc1+cvs.20140424-2) [non-free]
Python-based Molecular Viewer (functionality tests)
mgltools-pyautodock (1.5.7~rc1+cvs.20140424-1) [non-free]
Python implementation of autodock
mgltools-pybabel (1.5.7~rc1+cvs.20140424-1) [non-free]
molecular structure file access and interpretation
mgltools-pyglf (1.5.7~rc1+cvs.20140424-1) [non-free]
GLF library Python extension to write text in OpenGL
mgltools-scenario2 (1.5.7~rc1+cvs.20140424-1) [non-free]
Python-based viewer of molecular structures
mgltools-sff (1.5.7~rc1+cvs.20140424-1) [non-free]
Simple Force Field for Python
mgltools-support (1.5.7~rc1+cvs.20140424-1) [non-free]
Update mechanism of MGLTools
mgltools-symserv (1.5.7~rc1+cvs.20140424-1) [non-free]
Symetry server
mgltools-utpackages (1.5.7~rc1+cvs.20140424-1b1) [non-free]
UT Austin software Python extensions
mgltools-viewerframework (1.5.7~rc1+cvs.20140424-1) [non-free]
ViewerFramework supports building visualization applications
mgltools-vision (1.5.7~rc1+cvs.20140424+dfsg-1) [non-free]
Python-based Visual Programming Environment
mgltools-visionlibraries (1.5.7~rc1+cvs.20140424-1) [non-free]
Extensions for Python-based Visual Programming Environment
mgltools-volume (1.5.7~rc1+cvs.20140424-1) [non-free]
Volume rendering Python package
mgltools-webservices (1.5.7~rc1+cvs.20140424-1) [non-free]
webservices for components of autodocktools
mhap (1.6+dfsg-1)
locality-sensitive hashing to detect long-read overlaps
mia-tools (2.2.7-3b1)
Command line tools for gray scale image processing
mia-viewit (1.0.2-1)
Viewer program for 3D data sets created by using MIA
mialmpick (0.2.12-1)
Tools for landmark picking in 3D volume data sets
microbegps (1.0.0-2)
explorative taxonomic profiling tool for metagenomic data
microbiomeutil (20101212+dfsg1-1)
Microbiome Analysis Utilities
microbiomeutil-data (20101212+dfsg1-1)
Reference 16S sequences and NAST-alignments used by microbiomeutil tools
microhope (4.1.1+dfsg-2)
hardware & software framework to learn microcontrollers
minc-tools (2.3.00+dfsg-1)
MNI medical image format tools
minia (1.6906-1)
short-read biological sequence assembler
miniasm (0.2+dfsg-1)
ultrafast de novo assembler for long noisy DNA sequencing reads
minimap (0.2-2)
tool for approximate mapping of long biosequences such as DNA reads
minisat (1:2.2.1-5b1)
Fast and lightweight SAT solver
minisat+ (1.0-2b1)
solver for pseudo-Boolean constraints
mipe (1.1-5)
Tools to store PCR-derived data
mira-assembler (4.9.6-1)
Whole Genome Shotgun and EST Sequence Assembler
mira-rfam-12s-rrna (4.9.6-1)
extract of RFAM 12 rRNA database
missfits (2.8.0-1)
Basic maintenance and packaging tasks on FITS files
mldemos (0.5.1-3b2)
Machine Learning Demos (MLDemos) with Visualization
mlpack-bin (2.0.1-1)
intuitive, fast, scalable C++ machine learning library (binaries)
mlv-smile (1.47-4)
Find statistically significant patterns in sequences
mmass (5.5.0-5)
Mass spectrometry tool for proteomics
mmass-modules (5.5.0-5)
Mass spectrometry tool for proteomics - extension modules
mobyle (1.5.5+dfsg-1)
Web portal that provides web forms for command-line software
mobyle-programs (5.1.2-1)
Program descriptions for the mobyle portal
mobyle-tutorials (1.5.0-2)
program tutorials for the mobyle portal
mobyle-utils (1.5.5+dfsg-1)
binary tools used by Mobyle
molds (0.3.1-1b3)
Semi-empirical electronic structure and molecular dynamics
mona (1.4-17-1)
theorem prover based on automata
montage (4.0+dfsg-3b2)
Toolkit for assembling FITS images into mosaics
montage-gridtools (4.0+dfsg-3b2)
Create files to run montage on the grid
montecarlo-base (20061220+dfsg3-3)
[Physics] Common files for CERNLIB Monte Carlo libraries
montecarlo-data (20061220+dfsg3-3)
[Physics] data for CERNLIB Monte Carlo libraries
mopac7-bin (1.15-6)
Semi-empirical Quantum Chemistry Library (binaries)
morse-simulator (1.4-2b3)
Multi-OpenRobot Simulation Engine
morse-simulator-data (1.4-2b3)
Multi-OpenRobot Simulation Engine
mothur (1.37.6-1)
sequence analysis suite for research on microbiota
mothur-mpi (1.37.6-1)
mpi-enabled binary for mothur
mpb (1.5-2b1)
MIT Photonic-Bands
mpb-mpi (1.5-2b1)
MIT Photonic-Bands, parallel (mpich) version
mpb-scm (1.5-2b1)
MIT Photonic-Bands initialisation files
mpqc (2.3.1-16.1b3)
Massively Parallel Quantum Chemistry Program
mpqc-support (2.3.1-16.1b3)
Massively Parallel Quantum Chemistry Program (support tools)
mpqc3 (0.0~git20160216-3b2)
Massively Parallel Quantum Chemistry Program
mpqc3-data (0.0~git20160216-3b2)
Massively Parallel Quantum Chemistry Program (data files)
mrbayes (3.2.6+dfsg-1b2)
Bayesian Inference of Phylogeny
mrbayes-mpi (3.2.6+dfsg-1b2)
Bayesian Inference of Phylogeny - mpi version
mriconvert (1:2.0.8-3)
medical image file conversion utility
mricron (0.20140804.1~dfsg.1-1)
magnetic resonance image conversion, viewing and analysis
mricron-data (0.20140804.1~dfsg.1-1)
data files for MRIcron
mrpt-apps (1:1.3.0-1b1)
Mobile Robot Programming Toolkit - Console and GUI applications
mrs (6.0.5+dfsg-1b2)
Information Retrieval System for Biomedical databanks
mrtrix (0.2.12-2)
diffusion-weighted MRI white matter tractography
mssstest (3.0-4) [non-free]
Normalisation of disease scores for patients with Multiple Sclerosis
mummer (3.23~dfsg-3)
Efficient sequence alignment of full genomes
murasaki (1.68.6-5)
homology detection tool across multiple large genomes
murasaki-common (1.68.6-5)
homology detection tool across multiple large genomes (common files)
murasaki-mpi (1.68.6-5)
homology detection tool across multiple large genomes (MPI-version)
muscle (1:3.8.31+dfsg-1)
Multiple alignment program of protein sequences
music-bin (1.0.7-1.2b2)
Multi-Simulation Coordinator for MPI -- Utilities
mustang (3.2.2-1b1)
multiple structural alignment of proteins
mustang-testdata (3.2.2-1b1)
multiple structural alignment of proteins, test data
nanopolish (0.4.0-1b2)
consensus caller for nanopore sequencing data
nast-ier (20101212+dfsg1-1)
NAST-based DNA alignment tool
nastran (0.1.95-1) [non-free]
NASA Structural Analysis System
nautic (1.5-1.1b1)
computation of observer position in astro-navigation
ncbi-blast+ (2.3.0-1)
next generation suite of BLAST sequence search tools
ncbi-blast+-legacy (2.3.0-1)
NCBI Blast legacy call script
ncbi-epcr (2.3.12-1-3)
Tool to test a DNA sequence for the presence of sequence tagged sites
ncbi-rrna-data (6.1.20120620-10)
large rRNA BLAST databases distributed with the NCBI toolkit
ncbi-seg (0.0.20000620-3)
tool to mask segments of low compositional complexity in amino acid sequences
ncbi-tools-bin (6.1.20120620-10)
NCBI libraries for biology applications (text-based utilities)
ncbi-tools-x11 (6.1.20120620-10)
NCBI libraries for biology applications (X-based utilities)
ncl-ncarg (6.3.0-8b2)
NCAR Command Language and NCAR graphics
ncl-tools (2.1.18+dfsg-2)
tools to deal with NEXUS files
nco (4.6.0-1)
Command-line operators to analyze netCDF files
ncoils (2002-4)
coiled coil secondary structure prediction
ncview (2.1.7+ds-1)
X11 visual browser for NetCDF format files
neat (2.0-1)
Nebular Empirical Analysis Tool
neobio (0.0.20030929-2)
computes alignments of amino acid and nucleotide sequences
netcdf-bin (1:4.4.0-2)
Programs for reading and writing NetCDF files
neurodebian (0.37.4)
neuroscience-oriented distribution - repository configuration
neurodebian-archive-keyring (0.37.4)
neuroscience-oriented distribution - GnuPG archive keys
neurodebian-desktop (0.37.4)
neuroscience-oriented distribution - desktop integration
neurodebian-dev (0.37.4)
neuroscience-oriented distribution - development tools
neurodebian-popularity-contest (0.37.4)
neuroscience-oriented distribution - popcon integration
nexus-tools (4.3.2-svn1921-3)
NeXus scientific data file format - applications
njplot (2.4-3)
phylogenetic tree drawing program
node-mgrs (0.0.3-2)
Utility for converting between WGS84 lat/lng and MGRS coordinates
node-proj4 (2.3.14+ds-1)
Node.js module to transform point coordinates systems
node-sphericalmercator (1.0.1-2)
Spherical Mercator projection support for NodeJS
node-srs (0.4.8+dfsg-2)
spatial reference library for Node.js
norsnet (1.0.17-2)
tool to identify unstructured loops in proteins
norsp (1.0.6-2)
predictor of non-regular secondary structure
numdiff (5.8.1-2)
Compare similar files with numeric fields
oar-common (2.5.7-2)
OAR batch scheduler common package
oar-node (2.5.7-2)
OAR batch scheduler node package
oar-restful-api (2.5.7-2)
OAR web services
oar-server (2.5.7-2)
OAR batch scheduler server package
oar-server-mysql (2.5.7-2)
OAR batch scheduler MySQL server backend package
oar-server-pgsql (2.5.7-2)
OAR batch scheduler PostgreSQL server backend package
oar-user (2.5.7-2)
OAR batch scheduler user package
oar-user-mysql (2.5.7-2)
OAR batch scheduler MySQL user backend package
oar-user-pgsql (2.5.7-2)
OAR batch scheduler PostgreSQL user backend package
oar-web-status (2.5.7-2)
OAR batch scheduler visualization tool package
obdgpslogger (0.16-1.3 [i386], 0.16-1.2b3 [amd64])
suite of tools to log OBDII and GPS data
objcryst-fox (
Free Objects for Xtallography
oce-draw (0.17.2-1)
OpenCASCADE Community Edition CAE platform shared library
octave-bart (0.3.00-1b2)
Octave bindings for BART
octave-biosig (1.4.1-1b2)
Octave bindings for BioSig library
octave-gdf (0.1.2-2)
IO library for the GDF -- Octave interface
octave-lhapdf (5.9.1-4b2)
Octave Bindings for LHAPDF
octave-psychtoolbox-3 (
toolbox for vision research -- Octave bindings
octomap-tools (1.8.0+dfsg-2)
Tools for 3D occupancy grid mapping
octovis (1.8.0+dfsg-2)
Visualization tool for OctoMap
odil (0.6.0-1)
C++11 library for the DICOM standard (application)
ogdi-bin (3.2.0~beta2-9)
Open Geographic Datastore Interface Library -- utilities
openbabel (2.3.2+dfsg-2.2b1)
Chemical toolbox utilities (cli)
openbabel-gui (2.3.2+dfsg-2.2b1)
Chemical toolbox utilities (graphical user interface)
opencaster (3.2.2+dfsg-1.1)
MPEG2 transport stream data generator and packet manipulator
openmolar (0.6.2-2)
dental practice management software
openms (2.0.0-3b2)
package for LC/MS data management and analysis
openms-common (2.0.0-3b2)
package for LC/MS data management and analysis - shared data
openmx (3.7.6-1)
package for nano-scale material simulations
openmx-data (3.7.6-1)
package for nano-scale material simulations (data)
openrocket (15.03)
Model Rocket Simulator
opensesame (0.27.4-2.1)
graphical experiment builder for the social sciences
openturns-examples (1.7-3)
examples of OpenTURNS functionalities
openturns-validation (1.7-3)
validation files for OpenTURNS
openuniverse (1.0beta3.1+dfsg-5)
3D Universe Simulator
openuniverse-common (1.0beta3.1+dfsg-5)
3D Universe Simulator data files
optgeo (2.23-1)
simulator for geometrical optics
opticalraytracer (3.2-1.1)
Virtual lens design workshop
origami (1.2.7+really0.7.4-1)
command-line management tool for Folding @ Home clients
orthanc (1.0.0+dfsg-4)
Lightweight, RESTful DICOM server for medical imaging
orthanc-dicomweb (0.2+dfsg-1)
Plugin to extend Orthanc with support of WADO and DICOMweb
orthanc-imagej (1.1+dfsg-1)
ImageJ plugin to import images from Orthanc
orthanc-webviewer (2.1-1)
Web viewer of medical images for Orthanc
ossim-core (
OSSIM core utilities
otf-trace (1.12.5+dfsg-1b3)
Open Trace Format support library - development files
ovito (2.3.3+dfsg1-2b3)
visualization and analysis tool for atomistic simulation data
p4vasp (0.3.29+dfsg-3)
visualization suite for the Vienna Ab-initio Simulation Package (VASP)
paje.app (1.98-1+build1)
generic visualization tool (Gantt chart and more)
paml (4.8+dfsg-1) [non-free]
Phylogenetic Analysis by Maximum Likelihood (PAML)
paraclu (9-1b1)
Parametric clustering of genomic and transcriptomic features
parafly (0.0.2013.01.21-3)
parallel command processing using OpenMP
paraview (5.0.1+dfsg1-5.1)
Parallel Visualization Application
parsinsert (1.04-2)
Parsimonious Insertion of unclassified sequences into phylogenetic trees
paw (1:2.14.04.dfsg.2-9b1)
Physics Analysis Workstation - a graphical analysis program
paw++ (1:2.14.04.dfsg.2-9b1)
Physics Analysis Workstation (Lesstif-enhanced version)
paw-common (1:2.14.04.dfsg.2-9b1)
Physics Analysis Workstation (common files)
paw-demos (1:2.14.04.dfsg.2-9b1)
Physics Analysis Workstation examples and tests
pbbarcode (0.8.0-2)
annotate PacBio sequencing reads with barcode information
pbdagcon (0~20151114+git1d12e13+ds-2)
sequence consensus using directed acyclic graphs
pbgenomicconsensus (2.0.0+20151210-1)
Pacific Biosciences variant and consensus caller
pbh5tools (0.8.0+dfsg-5)
tools for manipulating Pacific Biosciences HDF5 files
pbhoney (15.8.24+dfsg-1)
genomic structural variation discovery
pbjelly (15.8.24+dfsg-1)
genome assembly upgrading tool
pbsim (1.0.3-2)
simulator for PacBio sequencing reads
pdb2pqr (2.1.1+dfsg-1)
Preparation of protein structures for electrostatics calculations
pegasus-wms (4.4.0+dfsg-5)
Scientific workflow management system for HTCondor
perlprimer (1.1.21-2)
Graphical design of primers for PCR
perm (0.4.0-1b2)
efficient mapping of short reads with periodic spaced seeds
phipack (0.0.20160614-1)
PHI test and other tests of recombination
phybin (0.3-1)
binning/clustering newick trees by topology
phylip (1:3.696+dfsg-2)
package of programs for inferring phylogenies
phyml (3:3.2.0+dfsg-2)
Phylogenetic estimation using Maximum Likelihood
phyutility (2.7.3-1)
simple analyses or modifications on both phylogenetic trees and data matrices
picard-tools (2.1.1+dfsg-1)
Command line tools to manipulate SAM and BAM files
picosat (960-1)
SAT solver with proof and core support
piler (0~20140707-1)
genomic repeat analysis
pktools (2.6.7-2)
GDAL add-on tools to perform useful raster processing
placnet (1.03-2)
Plasmid Constellation Network project
planets (0.1.13-16)
Gravitation simulation of planetary bodies
plast (2.3.1+dfsg-4)
Parallel Local Sequence Alignment Search Tool
plast-example (2.3.1+dfsg-4)
Parallel Local Sequence Alignment Search Tool (example data)
plink (1.07-6)
whole-genome association analysis toolset
plink1.9 (1.90~b3.36-160416-1)
whole-genome association analysis toolset
pnetcdf-bin (1.7.0-1)
Programs for reading and writing parallel NetCDF files
poa (2.0+20060928-4)
Partial Order Alignment for multiple sequence alignment
populations (1.2.33+svn0120106-2.1b1)
population genetic software
poretools (0.5.1-1)
toolkit for nanopore nucleotide sequencing data
pp-popularity-contest (1.0.6-2b2)
PredictProtein popularity contest
pprepair (0.0~20160321-87ffae5-1)
planar partition repair tool
praat (6.0.15-1)
program for speech analysis and synthesis
prank (0.0.150803-2)
Probabilistic Alignment Kit for DNA, codon and amino-acid sequences
predictnls (1.0.20-3)
prediction and analysis of protein nuclear localization signals
predictprotein (1.1.07-1)
suite of protein sequence analysis tools
prepair (0.7-6)
polygon repair tool
prepair-data (0.7-6)
polygon repair tool -- example data
prime-phylo (1.0.11-2b1)
bayesian estimation of gene trees taking the species tree into account
primer3 (2.3.7-1)
Tool to design flanking oligo nucleotides for DNA amplification
proalign (0.603-2)
Probabilistic multiple alignment program
probabel (0.4.5-3)
Toolset for Genome-Wide Association Analysis
probabel-examples (0.4.5-3)
Example files for ProbABEL
probalign (1.4-4)
multiple sequence alignment using partition function posterior probabilities
probcons (1.12-10)
PROBabilistic CONSistency-based multiple sequence alignment
probcons-extra (1.12-10)
Extra programs from the probcons package
proda (1.0-10)
multiple alignment of protein sequences
prodigal (1:2.6.3-1)
Microbial (bacterial and archaeal) gene finding program
profbval (1.0.22-3)
predictor of flexible/rigid protein residues from sequence
profisis (1.0.11-2)
prediction of protein-protein interaction sites from sequence
profnet-bval (1.0.22-2)
neural network architecture for profbval
profnet-chop (1.0.22-2)
neural network architecture for profchop
profnet-con (1.0.22-2)
neural network architecture for profcon
profnet-isis (1.0.22-2)
neural network architecture for profisis
profnet-md (1.0.22-2)
neural network architecture for metadisorder
profnet-norsnet (1.0.22-2)
neural network architecture for norsnet
profnet-prof (1.0.22-2)
neural network architecture for profacc
profnet-snapfun (1.0.22-2)
neural network architecture for snapfun
profphd (1.0.42-1)
secondary structure and solvent accessibility predictor
profphd-net (1.0.22-2)
neural network architecture for profphd
profphd-utils (1.0.10-2)
profphd helper utilities convert_seq and filter_hssp
proftmb (1.1.12-4)
per-residue prediction of bacterial transmembrane beta barrels
progressivemauve (1.2.0+4713-2)
multiple genome alignment algorithms
proj-bin (4.9.2-3)
Cartographic projection library (tools)
prooftree (0.12-2b2)
proof-tree visualization for Proof General
proteinortho (5.13+dfsg-1)
Detection of (Co-)orthologs in large-scale protein analysis
prottest (3.4.2+dfsg-2)
selection of best-fit models of protein evolution
psfex (3.17.1+dfsg-3)
Point Spread Function model extractor
psi3 (3.4.0-6)
Quantum Chemical Program Suite
psi4 (1:1.0~rc-2b1)
Quantum Chemical Program Suite
psi4-data (1:1.0~rc-2b1)
Quantum Chemical Program Suite (data files)
psychopy (1.83.04.dfsg-2)
environment for creating psychology stimuli in Python
psychtoolbox-3-common (
toolbox for vision research -- arch/interpreter independent part
psychtoolbox-3-lib (
toolbox for vision research -- arch-specific parts
pyfai (0.11.0+dfsg-5)
Fast Azimuthal Integration scripts
pyfr (1.4.0-3)
flux reconstruction in Python
pymca (4.7.4+dfsg-1b2)
Python applications and toolkit for X-ray fluorescence analysis
pymca-data (4.7.4+dfsg-1b2)
Architecture independent data files for PyMca
pymol (
Molecular Graphics System
python-escript (
Escript/Finley finite elements Python2 system (with OpenMP)
python-escript-doc (
Documentation for Escript/Finley
python-escript-mpi (
Escript/Finley finite elements Python2 system (OpenMP + MPI)
python-expyriment (0.7.0+git34-g55a4e7e-3.1)
Python library for cognitive and neuroscientific experiments
python-pynlpl (
PyNLPl is a library for Natural Language Processing.
python3-escript (
Escript/Finley finite elements Python3 system (with OpenMP)
python3-escript-mpi (
Escript/Finley finite elements Python3 system (OpenMP + MPI)
python3-morse-simulator (1.4-2b3)
Multi-OpenRobot Simulation Engine
python3-pynlpl (
PyNLPl is a library for Natural Language Processing.
pyzo (4.1-3)
interactive editor for scientific Python
qfits-tools (6.2.0-8)
FITS manipulation tools
qmapshack (1.6.1-3)
GPS mapping (GeoTiff and vector) and GPSr management
qmc (0.94-3b2)
Quine McClusky Simplification Tool
qrisk2 (0.1.20150729-1)
cardiovascular disease risk calculator
qthid-fcd-controller (4.1-3b1)
Funcube Dongle controller
quantum-espresso (5.1+dfsg-4)
Electronic-Structure and Ab-Initio Molecular Dynamics Suite
quantum-espresso-data (5.1+dfsg-4)
Electronic-Structure and Ab-Initio Molecular Dynamics Suite (Documentation)
quitcount (3.1.3-2)
Small tool which may help yourself quit smoking
qutemol (0.4.1~cvs20081111-3.2b1)
interactive visualization of macromolecules
raccoon (1.0b-2) [contrib]
preparation of in silico drug screening projects
rasmol (
Visualize biological macromolecules
raster3d (3.0-3-2)
tools for generating images of proteins or other molecules
rate4site (3.0.0-2)
detector of conserved amino-acid sites
rawtran (0.3.8-2)
RAW photo to FITS converter
raxml (8.2.8+dfsg-1)
Randomized Axelerated Maximum Likelihood of phylogenetic trees
ray (2.3.1-4)
de novo genome assemblies of next-gen sequencing data
ray-extra (2.3.1-4)
Scripts and XSL sheets for post-processing for ray
rdkit-data (201503-3)
Collection of cheminformatics and machine-learning software (data files)
rdp-classifier (2.10.2-1)
extensible sequence classifier for fungal lsu, bacterial and archaeal 16s
readseq (1-11)
Conversion between sequence formats
reapr (1.0.18+dfsg-2)
universal tool for genome assembly evaluation
relion-bin (1.4+dfsg-1)
toolkit for 3D reconstructions in cryo-electron microscopy
relion-bin+gui (1.4+dfsg-1)
parallel toolkit for 3D reconstructions in cryo-electron microscopy
relion-bin+mpi (1.4+dfsg-1)
parallel toolkit for 3D reconstructions in cryo-electron microscopy
relion-bin+mpi+gui (1.4+dfsg-1)
parallel toolkit for 3D reconstructions in cryo-electron microscopy
repeatmasker-recon (1.08-3)
finds repeat families from biological sequences
reprof (1.0.1-2)
protein secondary structure and accessibility predictor
rna-star (2.5.2a+dfsg-3 [amd64], 2.4.2a+dfsg-1 [i386])
ultrafast universal RNA-seq aligner
rnahybrid (2.1.2-1)
Fast and effective prediction of microRNA/target duplexes
roary (3.6.2+dfsg-1)
high speed stand alone pan genome pipeline
rsem (1.2.31+dfsg-1)
RNA-Seq by Expectation-Maximization
rtax (0.984-3)
Classification of sequence reads of 16S ribosomal RNA gene
saga (2.2.7+dfsg-2)
System for Automated Geoscientific Analyses
saga-common (2.2.7+dfsg-2)
SAGA GIS architecture independent files
saint (2.5.0+dfsg-2)
Significance Analysis of INTeractome
salmon (0.4.2+ds1-3)
wicked-fast transcript quantification from RNA-seq data
samtools (1.3.1-2)
processing sequence alignments in SAM and BAM formats
samtools-test (1.3.1-2)
test files for the samtools package
saods9 (7.4.1+repack-3)
Image display tool for astronomy
saods9-tclpackages (7.4.1+repack-3)
Tcl/Tk packages provided with DS9
sat4j (2.3.3-1)
Efficient library of SAT solvers in Java
savi (1.4.9-1)
satellite constellation visualisation
sbmltoolbox (4.1.0-3)
libsbml toolbox for octave and matlab
scamp (2.0.4-2)
Compute astrometric and photometric solutions
science-astronomy (1.5)
Debian Science Astronomy transitional package
science-astronomy-dev (1.5)
Debian Science Astronomy-dev transitional package
science-biology (1.5)
Debian Science Biology packages
science-chemistry (1.5)
Debian Science Chemistry packages
science-config (1.5)
Debian Science Project config package
science-dataacquisition (1.5)
Debian Science data acquisition packages
science-dataacquisition-dev (1.5)
Debian Science data acquisition development packages
science-distributedcomputing (1.5)
Debian Science Distributed Computing packages
science-economics (1.5)
Debian Science Economics packages
science-electronics (1.5)
Debian Science Electronics packages
science-electrophysiology (1.5)
Debian Science packages for Electrophysiology
science-engineering (1.5)
Debian Science Engineering packages
science-engineering-dev (1.5)
Debian Science Engineering-dev packages
science-financial (1.5)
Debian Science financial engineering and computational finance
science-geography (1.5)
Debian Science Geography packages
science-geometry (1.5)
Debian Science geometry packages
science-highenergy-physics (1.5)
Debian Science High Energy Physics packages
science-highenergy-physics-dev (1.5)
Debian Science High Energy Physics development packages
science-imageanalysis (1.5)
Debian Science image analysis packages
science-linguistics (1.5)
Debian Science Linguistics packages
science-logic (1.5)
Debian Science Logic packages
science-machine-learning (1.5)
Debian Science Machine Learning packages
science-mathematics (1.5)
Debian Science Mathematics packages
science-mathematics-dev (1.5)
Debian Science Mathematics-dev packages
science-meteorology (1.5)
Debian Science Meteorology packages
science-meteorology-dev (1.5)
Debian Science Meteorology-dev packages
science-nanoscale-physics (1.5)
Debian Science Nanoscale Physics packages
science-nanoscale-physics-dev (1.5)
Debian Science Nanoscale Physics development packages
science-neuroscience-cognitive (1.5)
Debian Science packages for Cognitive Neuroscience
science-neuroscience-modeling (1.5)
Debian Science packages for modeling of neural systems
science-numericalcomputation (1.5)
Debian Science Numerical Computation packages
science-physics (1.5)
Debian Science Physics packages
science-physics-dev (1.5)
Debian Science Physics-dev packages
science-presentation (1.5)
Debian Science generic tools for presentations
science-psychophysics (1.5)
Debian Science packages for Psychophysics
science-robotics (1.5)
Debian Robotics packages
science-robotics-dev (1.5)
Debian Robotics development packages
science-simulations (1.5)
Debian Science Simulation packages
science-social (1.5)
Debian Science social sciences packages
science-statistics (1.5)
Debian Science Statistics packages
science-tasks (1.5)
Debian Science tasks for tasksel
science-typesetting (1.5)
Debian Science typesetting packages
science-viewing (1.5)
Debian Science data visualisation packages
science-viewing-dev (1.5)
Debian Science development of visualisation applications
scrm (1.7.2-1)
simulator of evolution of genetic sequences
sctk (2.4.10-20151007-1312Z+dfsg2-3)
speech recognition scoring toolkit
scythe (0.994-3)
Bayesian adaptor trimmer for sequencing reads
sdrangelove (
Osmocom Software Defined Radio
seaview (1:4.6-2)
Multiplatform interface for sequence alignment and phylogeny
seelablet (1.0.6-1)
python library and scripts for SEELablet experiment box
seelablet-common (1.0.6-1)
common files for SEELablet
seer (1.1.1-2)
genomic sequence element (kmer) enrichment analysis
seq-gen (1.3.3-1) [non-free]
simulate the evolution of nucleotide or amino acid sequences
seqan-apps (1.4.1+dfsg-2b1)
C++ library for the analysis of biological sequences
seqprep (1.1-4)
stripping adaptors and/or merging paired reads of DNA sequences with overlap
seqprep-data (1.1-4)
example data set for seqprep - only used for testing
seqtk (1.2-1)
Fast and lightweight tool for processing sequences in the FASTA or FASTQ format
sextractor (2.19.5+dfsg-4)
Source extractor for astronomical images
sga (0.10.14-1)
de novo genome assembler that uses string graphs
shelxle (1.0.748-1)
graphical user interface for SHELXL
shogun-cmdline-static (3.2.0-7.3b2)
Large Scale Machine Learning Toolbox
sibsim4 (0.20-2)
align expressed RNA sequences on a DNA template
sickle (1.33-1)
windowed adaptive trimming tool for FASTQ files using quality
sift (4.0.3b-4b1) [non-free]
predicts if a substitution in a protein has a phenotypic effect
sigma-align (1.1.3-4)
Simple greedy multiple alignment of non-coding DNA sequences
sigviewer (0.5.1+svn556-4b1)
GUI viewer for biosignals such as EEG, EMG, and ECG
sim4 (0.0.20121010-3)
tool for aligning cDNA and genomic DNA
simgrid-java (3.12-2)
Java bindings for the SimGrid Toolkit
siril (0.9.3-1)
astronomical image processing tool
skycat (3.1.2+starlink1~b+dfsg-2b2)
Image visualization and access to catalogs and data for astronomy
slang-xfig (0.2.0~.35-1.1)
produce plots and drawings through Xfig's fig2dev in S-Lang
sleepyhead (1.0.0-beta-2+dfsg-1)
Sleep tracking software with a focus on monitoring CPAP treatment
smalt (0.7.6-6)
Sequence Mapping and Alignment Tool
smalt-examples (0.7.6-6)
Sequence Mapping and Alignment Tool (examples)
smrtanalysis (0~20160416)
software suite for single molecule, real-time sequencing
snakemake (3.5.5+dfsg-1)
pythonic workflow management system
snap (2013-11-29-2)
location of genes from DNA sequence with hidden markov model
snap-aligner (0.18~1.0~beta.18+dfsg1-3)
Scalable Nucleotide Alignment Program
snaphu (1.4.2-2) [non-free]
Statistical-Cost, Network-Flow Algorithm for 2D Phase Unwrapping
sniffles (0.0.1+ds-1)
structural variation caller using third-generation sequencing
snp-sites (2.3.2-1)
Binary code for the package snp-sites
snpomatic (1.0-3)
fast, stringent short-read mapping software
soapdenovo (1.05-2b1)
short-read assembly method to build de novo draft assembly
soapdenovo2 (240+dfsg-3)
short-read assembly method to build de novo draft assembly
sortmerna (2.1-1)
tool for filtering, mapping and OTU-picking NGS reads
spaced (1.0.2+dfsg-1)
alignment-free sequence comparison using spaced words
spades (3.8.1+dfsg-1)
genome assembler for single-cell and isolates data sets
spass (3.7-3)
An automated theorem prover for first-order logic with equality
spatialite-bin (4.3.0-2)
Geospatial extension for SQLite - tools
spd (1.3.0-1)
Synchrotron image corrections and azimuthal integration
splash (2.6.0-2)
Visualisation tool for Smoothed Particle Hydrodynamics simulation
sprai (
single-pass sequencing read accuracy improver
spread-phy (1.0.7+dfsg-1)
analyze and visualize phylogeographic reconstructions
squizz (0.99b+dfsg-3)
Converter for genetic sequences and alignments
sra-toolkit (2.3.5-2+dfsg-1)
utilities for the NCBI Sequence Read Archive
sra-toolkit-libs-dev (2.3.5-2+dfsg-1)
Development files for the NCBI SRA Toolkit's libraries
sra-toolkit-libs0 (2.3.5-2+dfsg-1)
Libraries for the SRA Toolkit
ssake (3.8.4-1)
genomics application for assembling millions of very short DNA sequences
ssake-examples (3.8.4-1)
example data for SSAKE, a genomic assembler of short reads
sspace (2.1.1+dfsg-1)
scaffolding pre-assembled contigs after extension
ssw-align (1.0-2)
Smith-Waterman aligner based on libssw
stacks (1.40-1)
pipeline for building loci from short-read DNA sequences
stacks-web (1.40-1)
web interface for displaying loci from short-read sequences
staden (2.0.0+b10-5)
DNA sequence assembly (Gap4/Gap5), editing and analysis tools
staden-common (2.0.0+b10-5)
Architecture independent files for Staden
staden-io-lib-examples (1.14.8-2)
programs for maniuplating DNA sequencing files (usage examples)
staden-io-lib-utils (1.14.8-2)
programs for maniuplating DNA sequencing files
stardata-common (0.8)
Common framework to manage astronomy packages
starpu-contrib-examples (1.1.4+dfsg-5 [amd64], 1.1.4+dfsg-4b2 [i386]) [contrib]
Task scheduler for heterogeneous multicore machines - exs
starpu-examples (1.1.4+dfsg-5)
Task scheduler for heterogeneous multicore machines - exs
virtual package provided by starpu-contrib-examples
stellarium (0.14.3-1)
real-time photo-realistic sky generator
stellarium-data (0.14.3-1)
Stellarium data files
step (4:16.04.0-1)
interactive physical simulator for KDE
stiff (2.4.0-2)
convert scientific FITS images to the TIFF format
stimfit (0.15.2-1)
Program for viewing and analyzing electrophysiological data
subread (1.5.0-p3+dfsg-1)
toolkit for processing next-gen sequencing data
subread-data (1.5.0-p3+dfsg-1)
data files for subread package
suitename (0.3.070628-1)
categorize each suite in an RNA backbone
sumaclust (1.0.20-1)
fast and exact clustering of genomic sequences
sumatra (1.0.20-1)
fast and exact comparison and clustering of sequences
sumo (0.26.0+dfsg1-1)
Simulation of Urban MObility (SUMO)
surankco (0.0.r5+dfsg-1)
Supervised Ranking of Contigs in de novo Assemblies
survex (1.2.27-1)
cave surveying and mapping software
survex-aven (1.2.27-1)
sophisticated cave survey viewer for Survex
swarm (2.1.8-1)
robust and fast clustering method for amplicon-based studies
swarp (2.38.0+dfsg-3)
Resample and co-add together FITS images
virtual package provided by suckless-tools
swe-basic-data (
basic data files for the libswe package
swe-standard-data (00004-1)
standard data for the Swiss Ephemeris
synphot-data (0.9.7+dfsg-1) [contrib]
Optional data files for pysynphot
syrthes (4.3.0-dfsg1-1b1)
Transient thermal simulations in complex solid geometries
syrthes-gui (4.3.0-dfsg1-1b1)
Transient thermal simulations in complex solid geometries - GUI
syrthes-tests (4.3.0-dfsg1-1b1)
Test cases for SYRTHES
syrthes-tools (4.3.0-dfsg1-1b1)
Transient thermal simulations in complex solid geometries - tools
t-coffee (11.00.8cbe486-4)
Multiple Sequence Alignment
t-coffee-examples (11.00.8cbe486-4)
annotated examples for the use of T-Coffee
tabix (1.3.1-1)
generic indexer for TAB-delimited genome position files
tandem-mass (1:20151215-4)
mass spectrometry software for protein identification
tantan (13-4)
low complexity and tandem repeat masker for biosequences
tcd-utils (20061127-2)
convert Tide Constituent Database (TCD) files
tcl-fitstcl (2.4-3)
Tcl interface to FITS files
terraintool (1.12a-1)
Generates survex format terrain models from SRTM and ASTER data
tessa (0.3.1-6.1)
simulation of 3D optical systems with the FDTD method
tessa-mpi (0.3.1-6.1)
simulation of 3D optical systems using FDTD on MPI clusters
therion (5.3.16-10)
Cave surveying - 2D and 3D drawing software
therion-viewer (5.3.16-10)
Cave surveying - 3D viewer for therion models
theseus (3.3.0-5)
superimpose macromolecules using maximum likelihood
theseus-examples (3.3.0-5)
superimpose macromolecules using maximum likelihood (examples)
tigr-glimmer (3.02-4)
Gene detection in archea and bacteria
timbl (6.4.6-1b1)
Tilburg Memory Based Learner
timblserver (1.8-1.1)
Server extensions for Timbl
tksao (7.4.1+repack-3)
Tk widgets for astronomical imaging and data visualization
tm-align (20160521+dfsg-2)
structural alignment of proteins
tophat (2.1.1+dfsg-2)
fast splice junction mapper for RNA-Seq reads
topp (2.0.0-3b2)
set of programs implementing The OpenMS Proteomic Pipeline
toppred (1.10-3)
transmembrane topology prediction
toulbar2 (0.9.8-1)
Exact combinatorial optimization for Graphical Models
transcalc (0.14-5)
microwave and RF transmission line calculator
transdecoder (3.0.0+dfsg-2)
find coding regions within RNA transcript sequences
transrate-tools (1.0.0-1)
helper for transrate
transtermhp (2.09-3)
find rho-independent transcription terminators in bacterial genomes
travis (150916-1)
trajectory analyzer and visualizer
tree-ppuzzle (5.2-8)
Parallelized reconstruction of phylogenetic trees by maximum likelihood
tree-puzzle (5.2-8)
Reconstruction of phylogenetic trees by maximum likelihood
treeview (
Java re-implementation of Michael Eisen's TreeView
treeviewx (0.5.1+20100823-3b1)
Displays and prints phylogenetic trees
triangle-bin (1.6-2) [non-free]
High-quality 2-D mesh generator binary programs
trimmomatic (0.36+dfsg-1)
flexible read trimming tool for Illumina NGS data
trinityrnaseq (2.2.0+dfsg-1)
RNA-Seq De novo Assembly
trinityrnaseq-examples (2.2.0+dfsg-1)
RNA-Seq De novo Assembly common example and testing files
tunnelx (20140102-3)
Cave Survey drawing software
twms (0.05t-2)
tiny web map service
ubertooth (2015.09.R2-4)
2.4 GHz wireless development platform for Bluetooth experimentation
ubertooth-firmware (2015.09.R2-4)
Firmware for Ubertooth
ubertooth-firmware-source (2015.09.R2-4)
Source code for the Ubertooth firmware
uc-echo (1.12-9)
error correction algorithm designed for short-reads from NGS
ucto (0.8.0-2)
Unicode Tokenizer
ugene (1.21.0+dfsg-1) [non-free]
integrated bioinformatics toolkit
ugene-data (1.21.0+dfsg-1) [non-free]
required data for UGENE - integrated bioinformatics toolkit
uhd-host (3.9.4-2)
universal hardware driver for Ettus Research products - host apps
units-filter (3.7-1b1)
Parser for expressions concerning physical values
v-sim (3.7.2-1b3)
Visualize atomic structures
v-sim-common (3.7.2-1b3)
Visualize atomic structures (support files)
v-sim-plugins (3.7.2-1b3)
Plugins for V_Sim (a 3D visualization package)
varna (3-93+ds-1)
Visualization Applet for RNA
varscan (2.3.9+dfsg-1) [non-free]
variant detection in next-generation sequencing data
vcftools (0.1.14+dfsg-2)
Collection of tools to work with VCF files
velvet (1.2.10+dfsg1-3)
Nucleic acid sequence assembler for very short reads
velvet-example (1.2.10+dfsg1-3)
Example data for the Velvet sequence assembler
velvet-long (1.2.10+dfsg1-3)
Nucleic acid sequence assembler for very short reads, long version
velvet-tests (1.2.10+dfsg1-3)
Test data for the Velvet sequence assembler
velvetoptimiser (2.2.5-2)
automatically optimise Velvet do novo assembly parameters
veusz (1.21.1-1b2)
2D scientific plotting application with graphical interface
veusz-helpers (1.21.1-1b2)
Architecture-specific helper module for Veusz
viewmol (2.4.1-23b1)
A graphical front end for computational chemistry programs.
visp-images-data (3.0.0-2)
visual servoing library - dataset reference files
vistrails (2.2-1)
Science visualisation workflow toolkit
votca-csg (1.2.4-2.1)
VOTCA's coarse-graining engine
votca-csg-scripts (1.2.4-2.1)
VOTCA's coarse-graining scripts
votca-csg-tutorials (1.2.4-2.1)
VOTCA's coarse-graining tutorials
vowpal-wabbit (7.3-1.1b2)
fast and scalable online machine learning algorithm
voxbo (1.8.5~svn1246-2b1)
processing, statistical analysis, and display of brain imaging data
vsearch (1.11.1-1)
tool for processing metagenomic sequences
wcslib-tools (5.15-1)
Command line tools utilizing wcslib
wcstools (3.9.2-5)
Handle the WCS of a FITS image
weightwatcher (1.12-1)
Combine maps and polygon data for astronomical image processing
weka (3.6.13-1)
Machine learning algorithms for data mining tasks
wfrog (0.8.2+svn973-1)
Web-based customizable weather station software
wigeon (20101212+dfsg1-1)
reimplementation of the Pintail 16S DNA anomaly detection utility
wise (2.4.1-18)
comparison of biopolymers, like DNA and protein sequences
wxastrocapture (1.8.1+git20140821+dfsg-1b1)
Windows linuX Astronomy Capture
xbs (0-10)
3-d models and movies of molecules
xcrysden (1.5.60-1)
Crystalline and Molecular Structure Visualizer
xcrysden-data (1.5.60-1)
Crystalline and Molecular Structure Visualizer (Data Files)
xdrawchem (2.0-4)
Chemical structures and reactions editor
xflr5 (6.09.06-2b1)
analysis tool for airfoils
xfoil (6.99.dfsg-2)
program for the design and analysis of subsonic airfoils
xmakemol (5.16-9)
program for visualizing atomic and molecular systems
xmakemol-gl (5.16-9)
program for visualizing atomic and molecular systems (OpenGL)
xmds2 (2.2.2+dfsg-2)
eXtensible Multi-Dimensional Simulator
xpa-tools (2.1.17-6)
Tools for seamless communication between Unix programs
xplot (1.19-9)
simple on-screen x-y column data plotter
xplot-xplot.org (
fast tool to graph and visualize lots of data
xppaut (6.11b+1.dfsg-1)
Phase Plane Plus Auto: Solves many kinds of equations
xtide (2.13.2-1b3)
provides tide and current predictions
xtide-coastline (20020202-1)
coastline data for xtide
xtide-data (20100529-1)
Harmonics data for xtide
xtide-data-nonfree (20100529-1) [non-free]
Harmonics data for xtide (Canada, Netherlands, Germany and UK)
xyscan (3.33-1b1)
data thief for scientists
yade (1.20.0-10 [i386], 1.20.0-7 [amd64])
Platform for discrete element modeling
yagv (0.4~20130422.r5bd15ed+dfsg-1)
yet another G-code viewer
yale (5.0.95-2) [non-free]
stellar data set from the Yale Bright Star Catalog
yorick (2.2.04+dfsg1-5)
interpreted language and scientific graphics
yorick-av (0.0.3-4b1)
write movies from Yorick in various formats
yorick-cubeview (2.2-2)
3D FITS data viewer specialized in spectro-imaging
yorick-curses (0.1-6)
interface to the (n)curses library for the Yorick language
yorick-data (2.2.04+dfsg1-5)
interpreted library for the Yorick language
yorick-dev (2.2.04+dfsg1-5)
development files for the Yorick interpreted language
yorick-full (2.2.04+dfsg1-5)
full installation of the Yorick interpreter and add-ons
yorick-gl (1.1+cvs20070922+dfsg-6.1b1)
OpenGL 3D graphics support for the Yorick language
yorick-gy (0.0.5-1)
GObject introspection and Gtk bindings for Yorick
yorick-gyoto (1.0.2-2b2)
General relativistic geodesic integration for the Yorick language
yorick-hdf5 (0.8.0-5b1)
Hierarchical Data Format 5 interface for the Yorick language
yorick-imutil (0.5.7-3)
fast image manipulation routines for the Yorick language
yorick-mira (0.9.10+dfsg-1)
optical interferometry image reconstruction within Yorick
yorick-ml4 (0.6.0-3)
Matlab file format support for the Yorick language
yorick-mpeg (0.1-3)
MPEG output support for the Yorick language
yorick-mpy-common (2.2.04+dfsg1-5)
Message Passing Yorick (common files)
yorick-mpy-mpich2 (2.2.04+dfsg1-5)
Message Passing Yorick (MPICH2 build)
yorick-mpy-openmpi (2.2.04+dfsg1-5)
Message Passing Yorick (OpenMPI build)
yorick-optimpack (1.3.2+dfsg-1)
optimization of large scale problems for the Yorick language
yorick-soy (1.4.0-3)
sparse matrix operations for the Yorick language
yorick-spydr (0.8.2-3)
FITS image display and simple analysis
yorick-svipc (0.16-2)
interprocess communication (shared memory...) for Yorick
yorick-yao (5.4.0-1)
Yorick-based adaptive optics system simulator
yorick-yeti (6.3.3-2)
utility plugin for the Yorick language
yorick-yeti-fftw (6.3.3-2)
FFT plugin for the Yorick language
yorick-yeti-gsl (6.3.3-2)
dummy transitional package
virtual package provided by yorick-ygsl
yorick-yeti-regex (6.3.3-2)
POSIX regular expressions for the Yorick language
yorick-yeti-tiff (6.3.3-2)
TIFF image format input for the Yorick language
yorick-ygsl (1.2.0-2)
GSL special functions plugin for the Yorick language
yorick-ynfft (1.0.3-1)
nonequispaced fast Fourier transform for Yorick
yorick-yutils (1.5.2-1)
various utilities for the Yorick language
yorick-z (1.2.0+cvs20080115-5b3)
zlib, jpeg and png support for the Yorick language
z3 (4.4.0-3)
theorem prover from Microsoft Research
z88 (13.0.0+dfsg2-3)
Finite Element Analysis Program - runtime
z88-data (13.0.0+dfsg2-3)
Finite Element Analysis Program - data
zalign (0.9.1-2)
parallel local alignment of biological sequences
zegrapher (3.0-1)
plotting mathematical functions and sequences on the plane
zimpl (3.3.2-1)
mathematical modeling language for optimization problems
ztex-bmp (20120314-2)
universal macro processor