Software Packages in "etch", Subsection science
- achilles (2-6+b1 [hppa], 2-6 [alpha, amd64, arm, i386, ia64, mips, mipsel, powerpc, s390, sparc])
- An artificial life and evolution simulator
- adun.app (0.6-3)
- Molecular Simulator for GNUstep
- amap-align (2.0-1)
- Protein multiple alignment by sequence annealing
- apbs (0.4.0-2+b1 [hppa], 0.4.0-2 [alpha, amd64, i386, ia64, mips, mipsel, powerpc, s390, sparc])
- Adaptive Poisson Boltzmann Solver
- astronomical-almanac (5.6-2+b1 [sparc], 5.6-2 [alpha, amd64, arm, hppa, i386, ia64, mips, mipsel, powerpc, s390])
- astronomical almanac - calculate planet and star positions
- avce00 (1.3.0-2)
- Tools for conversion of ESRI Arcinfo (binary) Vector Coverage in E00 format.
- avida-base (2.0b7-4+b1 [hppa], 2.0b7-4 [alpha, amd64, arm, i386, ia64, mips, mipsel, powerpc, s390, sparc])
- Auto-adaptive genetic system for Artificial Life research
- avida-qt-viewer (2.0b7-4+b1 [hppa], 2.0b7-4 [alpha, amd64, arm, i386, ia64, mips, mipsel, powerpc, s390, sparc])
- qt viewer for avida
- avida-viewer (2.0b7-4+b1 [hppa], 2.0b7-4 [alpha, amd64, arm, i386, ia64, mips, mipsel, powerpc, s390, sparc])
- ncurses viewer for avida
- biococoa.app (1.6.0-3)
- Sequence file format conversion for GNUstep
- biomode (1.002-7)
- [Biology] An Emacs mode to edit genetic data
- bioperl (1.4-1)
- Perl tools for computational molecular biology
- biosquid (1.9g+cvs20050121-1)
- utilities for biological sequence analysis
- blast2 (1:2.2.15.20061015-1)
- Basic Local Alignment Search Tool
- boinc-app-seti (5.13+cvs20060510-1)
- SETI@home application for the BOINC client
- boxshade (3.1.1-1)
- [Biology] Pretty-printing of multiple sequence alignments
- cassbeam (1.0-7)
- A program for Cassegrain antenna modelling
- cernlib (2005.dfsg-5)
- almost complete set of Debian Cernlib packages
- cernlib-core (2005.dfsg-5)
- Cernlib main libraries and programs
- cernlib-core-dev (2005.dfsg-5)
- Cernlib development headers, tools, and static libraries
- (2005.dfsg-5)
- miscellaneous Cernlib programs unlikely to be used by many
- cernlib-montecarlo (2005.dfsg-2)
- Cernlib Monte Carlo libraries
- chemtool (1.6.9-1)
- Chemical structures drawing program
- clustalw (1.83-1.2) [non-free]
- [Biology] Global multiple nucleotide or peptide sequence alignment
- clustalw-mpi (0.13-3) [non-free]
- [Biology] MPI-distributed global sequence alignment with ClustalW
- clustalx (1.83-1.2) [non-free]
- [Biology] GUI for clustalw
- ctsim (4.5.2-1.1)
- Computed tomography simulator
- ctsim
- virtual package provided by ctsim-pentium4
- ctsim-help (4.5.2-1.1)
- Online help file for CTSim
- ctsim-pentium4 (4.5.2-1.1)
- Computed tomography simulator (Pentium 4 optimized)
- dcmtk (3.5.4-2+b1 [hppa], 3.5.4-2 [alpha, amd64, arm, i386, ia64, mips, mipsel, powerpc, s390, sparc])
- The OFFIS DICOM toolkit command line utilities
- dialign (2.2.1-1)
- Segment-based multiple sequence alignment
- drawmap (2.5-2)
- draws customized maps, using raw USGS data files
- dx (1:4.4.0-2+b1 [hppa], 1:4.4.0-2 [alpha, amd64, arm, i386, ia64, mips, mipsel, powerpc, s390, sparc])
- OpenDX (IBM Visualization Data Explorer) - main package
- dxsamples (4.2.0-1)
- Sample programs for the OpenDX Data Explorer
- e00compr (1.0.0-6)
- a program to read/write Arc/Info compressed E00 files
- easychem (0.6-3)
- Draw high-quality molecules and 2D chemical formulas
- engauge-digitizer (3.0-2)
- interactively extracts numbers from bitmap graphs or maps
- ent (1.0-6)
- pseudorandom number sequence test program
- fastdnaml (1.2.2-6)
- [Biology] Tool for construction of phylogenetic trees of DNA sequences
- fastlink (4.1P-fix92-1)
- [Biology] A faster version of pedigree programs of Linkage
- fastlink-doc (4.1P-fix92-1)
- [Biology] Some papers about fastlink
- fityk (0.7.6-1)
- general-purpose nonlinear curve fitting and data analysis
- fv (3.0-15)
- a tool for viewing and editing FITS format files
- g3data (1:1.5.0-2)
- extract data from scanned graphs
- garlic (1.5-2)
- A visualization program for biomolecules
- gausssum (1.0.4-1)
- Parses and displays Gaussian, GAMESS, and HyperChem output
- gchempaint (0.6.6-3)
- 2D chemical structures editor for the GNOME2 desktop
- gcu-bin (0.6.3-3)
- GNOME chemistry utils (applications)
- gcx (0.9.8-2)
- astronomical image processing and photometry gtk+ application
- gdal-bin (1.3.2-4)
- Geospatial Data Abstraction Library - Utility programs
- gdis (0.89-2)
- molecular display
- gdpc (2.2.4-1)
- visualiser of molecular dynamic simulations
- gdpc-examples (2.2.4-1)
- example files for the gdpc program
- geant321 (1:3.21.14.dfsg-4)
- [Physics] Particle detector description and simulation tool
- geant321-data (1:3.21.14.dfsg-4)
- [Physics] Data for Geant 3.21 detector simulator
- genesis (2.2.1-11)
- general-purpose neural simulator
- gff2aplot (2.0-3)
- pair-wise alignment-plots for genomic sequences in PostScript
- gff2ps (0.98d-2)
- produces PostScript graphical output from GFF-files
- gliese (1.1-13) [non-free]
- Stellar data set from the Third Catalogue of Nearby Stars
- gmt (4.1.2-1.1)
- Generic Mapping Tools
- gmt-tutorial-pdf (4.1.2-1.1)
- Tutorial for GMT, the Generic Mapping Tools (PDF)
- gperiodic (2.0.7-5)
- periodic table application
- gpiv (0.3.1-2)
- Graphic User Interface program for Particle Image Velocimetry
- gpivtools (0.3.3-1)
- Command line programs for Particle Image Velocimetry
- gpx2shp (0.69-2)
- convert GPS or GPX file to ESRI Shape file
- grass (6.0.2-6)
- Geographic Resources Analysis Support System
- grass-doc (6.0.2-6)
- Geographic Resources Analysis Support System documentation
- gri (2.12.13-1)
- a language for scientific illustration
- gri-el (2.12.13-1)
- Emacs major-mode for gri, a language for scientific graphics
- gromacs (3.3.1-4)
- Molecular dynamics simulator, with building and analysis tools
- gromacs-lam (3.3.1-4)
- Molecular dynamics sim, binaries for LAM-MPI parallelization
- gromacs-mpich (3.3.1-4)
- Molecular dynamics sim, binaries for MPICH parallelization
- h5utils (1.10-5)
- HDF5 files visualization tools
- harminv (1.3.1-1)
- extraction of complex frequencies and amplitudes from time series
- hdf5-tools (1.6.5-3)
- Hierarchical Data Format 5 (HDF5) - Runtime tools
- hmmer (2.3.2-2)
- profile hidden Markov models for protein sequence analysis
- hmmer-pvm (2.3.2-2)
- HMMER programs with PVM (Parallel Virtual Machine) support
- hodie (1.4-5)
- prints the date in latin
- horae (063-3) [contrib]
- interactive graphical processing and analysis of EXAFS data
- ifeffit (1:1.3.0-3) [contrib]
- An interactive program for XAFS analysis
- ifrit (3.0.5-1)
- a powerful tool for visualizing 3-dimensional data sets
- imview (1.1.8-6)
- Image viewing and analysis application
- indi (4:3.5.5-1)
- Instrument Neutral Distributed Interface for astronomical devices
- kalign (1.04-1)
- Global and progressive multiple sequence alignment
- kalzium (4:3.5.5-1)
- chemistry teaching tool for KDE
- kalzium-data (4:3.5.5-1)
- data files for Kalzium
- kstars (4:3.5.5-1)
- desktop planetarium for KDE
- kstars-data (4:3.5.5-1)
- data files for KStars desktop planetarium
- kxterm (2005.dfsg-5+b1 [hppa], 2005.dfsg-5 [alpha, amd64, arm, i386, ia64, mips, mipsel, powerpc, s390, sparc])
- Cernlib's KUIP terminal emulator
- leksbot (1.2-9)
- An explanatory dictionary of botanic and biological terms
- libbio-ruby (1.0.0-1)
- bioruby tools for computational molecular biology
- libbio-ruby1.8 (1.0.0-1)
- bioruby tools for computational molecular biology
- libghemical-data (2.10-1)
- Molecular Modelling Library (Data Files)
- libpostgis-java (1.1.6-2)
- geographic objects support for PostgreSQL -- JDBC support
- libqgis0 (0.7.4-5)
- QGIS Geographic Information System - shared library
- libqgis0-dev (0.7.4-5)
- QGIS Geographic Information System - development files
- loki (2.4.7.4-1)
- [Biology] MCMC linkage analysis on general pedigrees
- loki-doc (2.4.7.4-1)
- [Biology] Postscript manual for loki
- mayavi (1.5-4)
- A scientific data visualization system
- minc-tools (1.5-1)
- MNI medical image format tools
- mipe (1.1-1)
- [Biology] Tools to store PCR-derived data
- mn-fit (5.13-4+b1 [alpha, amd64, hppa, ia64], 5.13-4 [arm, i386, mips, mipsel, powerpc, s390, sparc])
- interactive analysis package for fitting data and histograms
- mn-fit-common (5.13-4)
- common files for Mn_Fit
- molphy (2.3b3-2) [non-free]
- [Biology] Program Package for MOLecular PHYlogenetics
- montecarlo-base (2005.dfsg-2)
- [Physics] Common files for Cernlib Monte Carlo libraries
- mozilla-biofox (1.1.4-2)
- extension of bioinformatics tools to Mozilla and Iceweasel browsers
- mpb (1.4.2-10+b1 [hppa], 1.4.2-10 [alpha, amd64, i386, ia64, mips, mipsel, powerpc, s390, sparc])
- MIT Photonic-Bands
- mpb-mpi (1.4.2-10+b1 [hppa], 1.4.2-10 [alpha, amd64, i386, ia64, mips, mipsel, powerpc, s390, sparc])
- MIT Photonic-Bands, parallel (mpich) version
- mpqc (2.3.1-1+b1 [hppa], 2.3.1-1 [alpha, amd64, arm, i386, ia64, mips, mipsel, powerpc, s390, sparc])
- The Massively Parallel Quantum Chemistry Program
- mpqc-support (2.3.1-1+b1 [hppa], 2.3.1-1 [alpha, amd64, arm, i386, ia64, mips, mipsel, powerpc, s390, sparc])
- Support programs and tools for MPQC
- mssstest (2.0-2) [non-free]
- Normalisation of disease scores for patients with Multiple Sclerosis
- muscle (3.60-1)
- [Biology] multiple alignment program of protein sequences
- muscle-doc (3.60-1)
- [Biology] documentation to sequence alignment program
- ncbi-epcr (1.2.0-3+b1 [alpha, arm, hppa, i386, ia64, mips, mipsel, powerpc, s390, sparc], 1.2.0-3 [amd64])
- [Biology] Tool to test a DNA sequence for the presence of sequence tagged sites
- ncbi-epcr-data (1.2.0-3)
- [Biology] NCBI public STS data
- ncbi-tools-bin (6.1.20061015-1)
- NCBI libraries for biology applications (text-based utilities)
- ncbi-tools-x11 (6.1.20061015-1)
- NCBI libraries for biology applications (X-based utilities)
- necpp (1.2.4+cvs20060601-1)
- NEC2 Evolution Antenna Modelling System
- netcdf-bin (3.6.1-1)
- Programs for reading and writing NetCDF files
- njplot (0.20060606-2)
- [Biology] A tree drawing program
- openbabel (2.0.2-1)
- Convert and manipulate chemical data files
- openjump (1.0-2) [contrib]
- Open Java Unified Mapping Platform JUMP
- openuniverse (1.0beta3.1-6+b1 [hppa], 1.0beta3.1-6 [alpha, amd64, arm, i386, ia64, mips, mipsel, powerpc, s390, sparc])
- 3D Universe Simulator
- openuniverse-common (1.0beta3.1-6)
- 3D Universe Simulator data files
- paje.app (1.4.0-5)
- generic visualization tool (Gantt chart and more)
- paw (1:2.14.04-7)
- Physics Analysis Workstation - a graphical analysis program
- paw++ (1:2.14.04-7)
- Physics Analysis Workstation (Lesstif-enhanced version)
- paw++-static (1:2.14.04-7)
- Dummy package for smooth upgrades of Paw++
- paw-common (1:2.14.04-7)
- Physics Analysis Workstation (common files)
- paw-demos (1:2.14.04-7)
- Physics Analysis Workstation examples and tests
- paw-static (1:2.14.04-7)
- Dummy package for smooth upgrades of PAW
- perl-ifeffit (1:1.3.0-3) [contrib]
- Perl extensions for IFEFFIT
- perlprimer (1.1.14-1)
- [Biology] graphical design of primers for PCR
- phylip (1:3.6.1-2) [non-free]
- [Biology] A package of programs for inferring phylogenies
- phylip-doc (1:3.6.1-2) [non-free]
- [Biology] A package of programs for inferring phylogenies
- planets (0.1.12-7)
- Gravitation simulation of planetary bodies
- poa (2.0+20060928-1)
- Partial Order Alignment for multiple sequence alignment
- polyxmass (0.9.2)
- Mass spectrometry software framework
- polyxmass-bin (0.9.7-1)
- Mass spectrometry framework - GUI program
- polyxmass-bin-common (0.9.7-1)
- Mass spectrometry framework - GUI program arch-indep data
- polyxmass-common (0.8.7-2)
- Mass spectrometry framework - essential polymer chemistry data
- polyxmass-data (0.8.7-1)
- Mass spectrometry framework - supplementary chemical data
- praat (4.5.1-2)
- program for speech analysis and synthesis
- primer3 (1.0b-1)
- [Biology] Tool to design flanking oligo nucleotides for DNA amplification
- probcons (1.11-1)
- PROBabilistic CONSistency-based multiple sequence alignment
- (1.11-1)
- Extra programs from the probcons package
- proj (4.4.9d-2)
- Cartographic projection filter and library
- psi3 (3.2.3-1+b1 [hppa], 3.2.3-1 [alpha, amd64, arm, i386, ia64, mips, mipsel, powerpc, s390, sparc])
- Quantum Chemical Program Suite
- pymol (0.98+0.99rc6-2)
- An OpenGL Molecular Graphics System written in Python
- python-ifeffit (1:1.3.0-3) [contrib]
- Python GUI interface and extensions for IFEFFIT
- python-pyepl (1.0.26-1)
- library for coding psychology experiments in Python
- python-pyepl-common (1.0.26-1)
- library for coding psychology experiments in Python
- python-pyode (1.1.0-1)
- open-source Python bindings for The Open Dynamics Engine
- qgis (0.7.4-5)
- Geographic Information System (GIS)
- qgis-plugin-grass (0.7.4-5)
- Plugin for accessing GRASS data from QGIS
- qmc (0.94-3+b1 [alpha, arm, hppa, i386, ia64, mips, mipsel, powerpc, s390, sparc], 0.94-3 [amd64])
- Quine McClusky Simplification Tool
- qtdmm (0.8.6-1+b1 [hppa], 0.8.6-1 [alpha, amd64, arm, i386, ia64, mips, mipsel, powerpc, s390, sparc])
- GUI for digital multimeter
- rasmol (2.7.2.1.1-5)
- Visualize biological macromolecules
- rasmol-doc (2.7.2.1.1-5)
- Documentation for rasmol
- raster3d (2.7d-2) [non-free]
- tools for generating images of proteins or other molecules
- raster3d-doc (2.7d-2) [non-free]
- documents and example files for Raster3D
- readseq (1-6)
- [Biology] Conversion between sequence formats
- saods9 (4.0b7-1.4)
- image display tool for astronomy
- seaview (20060918-1)
- [Biology] Multiple sequence alignment editor
- seesat5 (0.90.10-1.1)
- a satellite location program
- (2.4.4-1)
- source extractor for astronomical images
- sigma-align (1.0-1)
- Simple greedy multiple alignment of non-coding DNA sequences
- sim4 (0.0.20030921-1)
- tool for aligning cDNA and genomic DNA
- sixpack (0.57-4) [contrib]
- full-featured package for XAS analysis
- spass (2.1-3)
- An automated theorem prover for first-order logic with equality
- ssystem (1.6-17)
- 3D solar system simulator
- stardata-common (0.4)
- Common framework to manage astronomy packages
- starplot (0.95.3-2+b1 [hppa], 0.95.3-2 [alpha, amd64, arm, i386, ia64, mips, mipsel, powerpc, s390, sparc])
- 3-dimensional perspective star map viewer
- stars (0.12+1-1+b1 [i386], 0.12+1-1 [alpha, amd64, arm, hppa, ia64, mips, mipsel, powerpc, s390, sparc]) [contrib]
- star map program that draws the night sky
- stellarium (0.8.1-2)
- real-time photo-realistic sky generator
- stellarium-data (0.8.1-2)
- datafiles for Stellarium, a real-time photo-realistic sky generator
- survex (1.0.39.1-1)
- cave surveying and mapping software
- survex-aven (1.0.39.1-1)
- sophisticated cave survey viewer for Survex
- survex-svxedit (1.0.39.1-1)
- survey data editor for Survex
- t-coffee (2.50-1)
- [Biology] Multiple Sequence Alignment
- tessa (0.3.1-4)
- simulation of 3D optical systems with the FDTD method
- tessa-mpi (0.3.1-4)
- simulation of 3D optical systems using FDTD on LAM-MPI clusters
- textopo (1.3-2.2)
- [Biology] LaTeX presentation of topology of transmembrane proteins
- therion (0.3.10-3)
- Cave surveying - 2D and 3D drawing software
- tigr-glimmer (2.13-1+b1 [alpha, arm, hppa, i386, ia64, mips, mipsel, powerpc, s390, sparc], 2.13-1 [amd64])
- [Biology] Gene detection in archea and bacteria
- tochnog (20010124-3.1)
- A free implicit/explicit finite element analysis program
- transcalc (0.13-1.1+b1 [alpha, arm, hppa, i386, ia64, mips, mipsel, powerpc, s390, sparc], 0.13-1.1 [amd64])
- microwave and RF transmission line calculator
- tree-ppuzzle (5.2-2)
- [Biology] Reconstruction of phylogenetic trees by maximum likelihood
- tree-puzzle (5.2-2)
- [Biology] Reconstruction of phylogenetic trees by maximum likelihood
- tree-puzzle-doc (5.2-2)
- [Biology] Reconstruction of phylogenetic trees by maximum likelihood
- treetool (2.0.2a-4) [non-free]
- [Biology] An interactive tool for displaying trees
- treeviewx (0.5.1-3)
- Displays and prints phylogenetic trees
- units-filter (2.6-1)
- Parser for expressions concerning physical values
- viewmol (2.4.1-10)
- A graphical front end for computational chemistry programs.
- wise (2.2.0-3)
- comparison of biopolymers, commonly DNA and protein sequences
- wise-doc (2.2.0-3)
- documentation for the wise package
- xbs (0-7.3)
- 3-d models and movies of molecules
- xdrawchem (1.9.9-3)
- Chemical structures and reactions editor
- xmakemol (5.15-2)
- A program for visualizing atomic and molecular systems
- xmakemol-gl (5.15-2)
- A program for visualizing atomic and molecular systems
- xorsa (0.7.0-7)
- tool for Celestial Mechanics investigations
- xplot (1.19-7.2)
- A simple x-y column data plotter for X.
- xtide (2.8.2-3+b1 [hppa], 2.8.2-3 [alpha, amd64, arm, i386, ia64, mips, mipsel, powerpc, s390, sparc])
- provides tide and current predictions
- xtide-data (20040203-3)
- Harmonics data for xtide
- yale (1.0-12) [non-free]
- Stellar data set from the Third Catalogue of Nearby Stars
- ygraph (0.15-3)
- Visualize one-dimensional scientific data
- zimpl (2.05.ds2-1)
- mathematical modeling language for optimization problems
