Paket Software Dalam Ubuntu 11.04 Natty Bagian Science

Software Packages in “natty”, Subsection science

Dalam Ubuntu 11.04 Natty terdapat ratusan paket software yang siap
diunduh. Kita tinggal milih bagiannya, lalu pilih software yang kita
perlukan. Setelah tahu namanya maka kita masuk ke terminal
(Command Line Interface) untuk siap menginstall:
Contoh, ketik di terminal: sudo apt-get install abinit [Enter],
maka langsung akan diinstall.

3depict (0.0.2-1) [universe]
visualisation and analysis for single valued point data
abinit (5.3.4.dfsg-3build1) [universe]
A package for electronic structure calculations
abinit-doc (5.3.4.dfsg-3build1) [universe]
A package for electronic structure calculations
acedb-other (4.9.39+dfsg.01-2) [universe]
retrieval of DNA or protein sequences
acedb-other-belvu (4.9.39+dfsg.01-2) [universe]
multiple sequence alignment editor
acedb-other-dotter (4.9.39+dfsg.01-2) [universe]
visualisation of sequence similarity
achilles (2-8) [universe]
An artificial life and evolution simulator (0.81-4build1) [universe]
Molecular Simulator for GNUstep
aeskulap (0.2.2b1-7ubuntu1) [universe]
medical image viewer and DICOM network client
algotutor (0.8.6-1) [universe]
program for observing the intermediate steps of algorithm
alien-hunter (1.7-1) [universe]
Interpolated Variable Order Motifs to identify horizontally acquired DNA
altree (1.0.1-4) [universe]
program to perform phylogeny-based association and localization analysis
altree-examples (1.0.1-4) [universe]
example files for ALTree
amap-align (2.2-1) [universe]
Protein multiple alignment by sequence annealing
ants (1.9+svn532-5) [universe]
advanced normalization tools for brain and image analysis
apbs (1.2.1b-1) [universe]
Adaptive Poisson Boltzmann Solver
astronomical-almanac (5.6-3) [universe]
astronomical almanac – calculate planet and star positions
autodock (4.2.3-1) [universe]
analysis of ligand binding to protein structure
autodock-test (4.2.3-1) [universe]
test files for AutoDock
autodocktools (1.5.4.cvs.20100912-2ubuntu1) [multiverse]
GUI to help set up, launch and analyze AutoDock dockings
autogrid (4.2.3-1) [universe]
pre-calculate binding of ligands to their receptor
autogrid-test (4.2.3-1) [universe]
test files for AutoGrid
avce00 (2.0.0-2) [universe]
Tools for conversion of ESRI Arcinfo (binary) Vector Coverage in E00 format.
avida-base (2.0b7-4.2ubuntu2) [universe]
Auto-adaptive genetic system for Artificial Life research
avida-qt-viewer (2.0b7-4.2ubuntu2) [universe]
qt viewer for avida
avida-viewer (2.0b7-4.2ubuntu2) [universe]
ncurses viewer for avida
avogadro (1.0.1-3.2ubuntu2) [universe]
Molecular Graphics and Modelling System
avogadro-data (1.0.1-3.2ubuntu2)
Molecular Graphics and Modelling System (Data Files)
ballview (1.3.2-2ubuntu3) [universe]
A free molecular modeling and molecular graphics tool
bauble (0.9.7-2)


biodiversity collection manager software application
bibus (1.5.1-3) [universe]
bibliographic database (1.6.0-8build2) [universe]
biological sequence file format conversion applet for GNUstep
bioperl (1.6.1-2) [universe]
Perl tools for computational molecular biology
bioperl-run (1.6.1-1) [universe]
Wrapper modules for BioPerl
biosquid (1.9g+cvs20050121-2) [universe]
utilities for biological sequence analysis
bist (0.5.1-1) [universe]
chemical drawing tool
bkchem (0.13.0-2) [universe]
Chemical structures editor
blast2 (1: [universe]
Basic Local Alignment Search Tool
blinken (4:4.6.2-0ubuntu2) [universe]
KDE version of the Simon electronic memory game
bodr (9-1) [universe]
Blue Obelisk Data Repository
boinc-app-milkyway (0.18d-1) [universe]
Milkyway@home application for the BOINC client
boinc-app-seti (5.13+cvs20060510-7) [universe]
SETI@home application for the BOINC client
boolector (1.4.ffc2089.100608-1) [universe]
SMT solver for bit-vectors and arrays
boxshade (3.3.1-4) [universe]
Pretty-printing of multiple sequence alignments
bwa (0.5.8c-1) [universe]
Burrows-Wheeler Aligner
caret ( [universe]
Computerized Anatomical Reconstruction and Editing Toolkit
cassbeam (1.0-8) [universe]
A program for Cassegrain antenna modelling
cba (0.3.6-4) [universe]
Continuous Beam Analysis
cbflib-bin ( [universe]
utilities to manipulate CBF files
celestia-common (1.6.0+dfsg-2) [universe]
Datafiles for Celestia, a real-time visual space simulation
celestia-common-nonfree (1.6.0-1) [multiverse]
Non-free datafiles for Celestia, a real-time visual space simulation
celestia-glut (1.6.0+dfsg-2) [universe]
A real-time visual space simulation (GLUT frontend)
cernlib (2006.dfsg.2-14.1) [universe]
CERNLIB data analysis suite – general use metapackage
cernlib-core (2006.dfsg.2-14.1) [universe]
CERNLIB data analysis suite – main libraries and programs
cernlib-core-dev (2006.dfsg.2-14.1) [universe]
CERNLIB data analysis suite – core development files
cernlib-extras (2006.dfsg.2-14.1) [universe]
CERNLIB data analysis suite – extra programs
cernlib-montecarlo (2006.dfsg.2-5ubuntu3) [universe]
CERNLIB Monte Carlo libraries
cgns-convert (2.5.4-3) [universe]
CFD General Notation System – Conversion tools
chemical-structures (2.1.dfsg.1-10) [universe]
A set of molecular structures in open formats
chemtool (1.6.12-1ubuntu1) [universe]
Chemical structures drawing program
clustalw (2.1-1) [multiverse]
global multiple nucleotide or peptide sequence alignment
clustalw-mpi (0.15-1) [multiverse]
MPI-distributed global sequence alignment with ClustalW
clustalx (2.1-1) [multiverse]
Multiple alignment of nucleic acid and protein sequences (graphical interface)
code-aster-gui (1.8.3-2) [universe]
Graphical user interface for Code_Aster – client
code-aster-run (1.8.3-2) [universe]
Graphical user interface for Code_Aster – server
code-saturne (2.0.0.rc1-5) [universe]
General purpose Computational Fluid Dynamics (CFD) software
code-saturne-bin (2.0.0.rc1-5) [universe]
General purpose Computational Fluid Dynamics (CFD) software – binaries
code-saturne-data (2.0.0.rc1-5) [universe]
General purpose Computational Fluid Dynamics (CFD) software – data
code-saturne-include (2.0.0.rc1-5) [universe]
General purpose Computational Fluid Dynamics (CFD) software – includes
coinor-csdp (6.1.1-1) [universe]
A software package for semidefinite programming
coinor-libcgl0 (0.55.0-1ubuntu1) [universe]
Cut Generator Library, a library of cutting-plane generators
coinor-libclp0 (1.12.0-2) [universe]
Coin-or linear programming solver
coinor-libclp0-dbg (1.12.0-2) [universe]
Coin-or linear programming solver
coinor-libcoinutils0 (2.6.4-3) [universe]
Coin-or collection of utility classes
coinor-libcoinutils0-dbg (2.6.4-3) [universe]
Coin-or collection of utility classes
coinor-libdylp0 (1.6.0-1) [universe]
Linear programming solver using the dynamic simplex algorithm
coinor-libflopc++0 (1.0.6-3) [universe]
Formulation of Linear Optimization Problems in C++
coinor-libosi0 (0.103.0-1) [universe]
COIN-OR Open Solver Interface
coinor-libsymphony0 (5.2.4-1ubuntu1) [universe]
COIN-OR solver for mixed-integer linear programs
coinor-libvol0 (1.1.7-1) [universe]
Coin-or linear programming solver
complearn-gui (1.0.7-2ubuntu1) [universe]
interactive 3d data mining tool and demo for universal machine learning
complearn-tools (1.1.7-1) [universe]
complearn machine-learning command-line utilities
critterding (1.0-beta12.1-1) [universe]
Evolving Artificial Life
ctsim (5.2.0-1) [universe]
Computed tomography simulator
ctsim-help (5.2.0-1) [universe]
Online help file for CTSim
dans-gdal-scripts (0.16-3) [universe]
GDAL contributed tools by Geographic Information Network of Alaska
dcmtk (3.6.0-1ubuntu1) [universe]
The OFFIS DICOM toolkit command line utilities
dialign (2.2.1-3) [universe]
Segment-based multiple sequence alignment
dialign-tx (1.0.2-1) [universe]
Segment-based multiple sequence alignment
dialign-tx-data (1.0.2-1) [universe]
Common data files for dialign-tx
dicomnifti (2.28.15-1) [universe]
converts DICOM files into the NIfTI format
drawmap (2.5-3) [universe]
draws customized maps, using raw USGS data files
drawxtl (5.4+dfsg-5) [universe]
crystal structure viewer
dsdp (5.8-8) [universe]
Software for Semidefinite Programming
dx (1:4.4.4-3build3) [universe]
OpenDX (IBM Visualization Data Explorer) – main package
dxsamples (4.2.0-1) [universe]
Sample programs for the OpenDX Data Explorer
e00compr (1.0.1-1) [universe]
a program to read/write Arc/Info compressed E00 files
easychem (0.6-6) [universe]
Draw high-quality molecules and 2D chemical formulas
ecs (2.0.0.rc1-3) [universe]
Code_Saturne Preprocessor
edfbrowser (1.30-1) [universe]
a viewer for biosignal storage files such as bdf and edf
eficas (2.0.3-1-1) [universe]
Graphical editor for Code Aster command files
elmer (5.5.0.svn.4897.dfsg-1ubuntu1) [universe]
finite element multiphysics suite – binaries
elmer-common (5.5.0.svn.4897.dfsg-1ubuntu1) [universe]
finite element multiphysics suite – architecture-independent files
embassy-domainatrix (0.1.0+20100721-2) [universe]
Extra EMBOSS commands to handle domain classification file
embassy-domalign (0.1.0+20100721-2) [universe]
Extra EMBOSS commands for protein domain alignment
embassy-domsearch (0.1.0++20100721-2) [universe]
Extra EMBOSS commands to search for protein domains
embassy-phylip (3.69+20100721-2) [multiverse]
EMBOSS conversions of the programs in the phylip package
emboss (6.3.1-6) [universe]
the european molecular biology open software suite
emboss-data (6.3.1-6) [universe]
data files for the EMBOSS package
emboss-explorer (2.2.0-7) [universe]
web-based GUI to EMBOSS
engauge-digitizer (4.1-2) [universe]
interactively extracts numbers from bitmap graphs or maps
ent (1.1debian-1.1) [universe]
pseudorandom number sequence test program
epigrass (2.0.4-1) [universe]
scientific tool for simulations and scenario analysis in network epidemiology
eprover (1.0.004-1ubuntu1) [universe]
Theorem prover for first-order logic with equality
eprover-doc-html (1.0.004-1ubuntu1) [universe]
Theorem prover for first-order logic with equality – HTML doc
eprover-examples (1.0.004-1ubuntu1) [universe]
Theorem prover for first-order logic with equality – examples
epsilon-bin (0.8.1-1) [universe]
A library for wavelet image compression – tools
etsf-io (1.0.3-3ubuntu1) [universe]
Binary tools to check, merge and read ETSF files
exonerate (2.2.0-2) [universe]
generic tool for pairwise sequence comparison
extrema (4.4.5.dfsg-1) [universe]
powerful visualization and data analysis tool
fastdnaml (1.2.2-9) [universe]
Tool for construction of phylogenetic trees of DNA sequences
fastlink (4.1P-fix95-1) [universe]
A faster version of pedigree programs of Linkage
fastlink-doc (4.1P-fix95-1) [universe]
Some papers about fastlink
feel++-apps (0.91.0~svn7013-1) [universe]
A library for the finite element method
fityk (0.9.3-1) [universe]
general-purpose nonlinear curve fitting and data analysis
freecad (0.10.3247.dfsg-2ubuntu3) [universe]
An extensible Open Source CAx program (alpha)
freediams (0.5.4-1) [universe]
Pharmaceutical drugs prescriptor and interactions checker
freediams-data (0.5.4-1) [universe]
Data for pharmaceutical drugs prescriptor and interactions checker FreeDiams
fsl (4.1.6-4) [multiverse]
Metapackage for the latest version of FSL
fsl-4.1 (4.1.6-4) [multiverse]
analysis tools for FMRI, MRI and DTI brain imaging
fslview (3.1.8+4.1.6-2build1) [universe]
viewer for (f)MRI and DTI data
fslview-doc (3.1.8+4.1.6-2build1) [universe]
Documentation for FSLView
g3data (1:1.5.3-2) [universe]
extract data from scanned graphs
gabedit (2.2.12-1) [universe]
graphical user interface to Ab Initio packages
gamgi (0.15-3ubuntu3) [universe]
General Atomistic Modelling Graphic Interface (GAMGI)
gamgi-data (0.15-3ubuntu3) [universe]
General Atomistic Modelling Graphic Interface (data)
garlic (1.6-1) [universe]
A visualization program for biomolecules
gausssum (2.2.4-1) [universe]
parse and display Gaussian, GAMESS, and etc’s output
gchempaint (0.12.7-1ubuntu1) [universe]
2D chemical structures editor for the GNOME2 desktop
gcrystal (0.12.7-1ubuntu1) [universe]
lightweight crystal structures visualizer
gcu-bin (0.12.7-1ubuntu1) [universe]
GNOME chemistry utils (helper applications)
gcu-plugin (0.12.7-1ubuntu1) [universe]
GNOME chemistry utils (browser plugin)
gdal-bin (1.6.3-4build3) [universe]
Geospatial Data Abstraction Library – Utility programs
gdis (0.90-3) [universe]
molecular and crystal model viewer
gdis-data (0.90-3) [universe]
molecular and crystal model viewer (data files)
gdpc (2.2.5-1) [universe]
visualiser of molecular dynamic simulations
gdpc-examples (2.2.5-1) [universe]
example files for the gdpc program
geant321 (1:3.21.14.dfsg-8ubuntu2) [universe]
[Physics] Particle detector description and simulation tool
geant321-data (1:3.21.14.dfsg-8ubuntu2) [universe]
[Physics] Data for GEANT 3.21 detector simulator
gelemental (1.2.0-6ubuntu1) [universe]
Periodic Table viewer
gelemental-dbg (1.2.0-6ubuntu1) [universe]
Periodic Table viewer (main application debugging symbols)
genesis (2.2.1-12ubuntu2) [universe]
general-purpose neural simulator
genesis-data (2.2.1-12ubuntu2) [universe]
scripts and documentation for genesis
gentle (1.9+cvs20100605+dfsg-2) [multiverse]
suite to plan genetic cloning
geographiclib-tools (1.2-1) [universe]
A C++ library to solve some geodesic problems — tools
geotiff-bin (1.2.5-1) [universe]
the GeoTIFF library — tools
gerris-mpi (20091109-dfsg.1-2) [universe]
Gerris Flow Solver
gff2aplot (2.0-5) [universe]
pair-wise alignment-plots for genomic sequences in PostScript
gff2ps (0.98d-3) [universe]
produces PostScript graphical output from GFF-files
ghkl (4.0.3-2) [universe]
diffractometer computation control library
glam2 (1064-1) [universe]
gapped protein motifs from unaligned sequences
gmap (2010-07-27-1) [multiverse]
spliced and SNP-tolerant alignment for mRNA and short reads
gmt (4.5.2-1build1) [universe]
Generic Mapping Tools
gmt-doc-pdf (4.5.2-1build1) [universe]
PDF docs for GMT, the Generic Mapping Tools
gmt-tutorial (3.4-1.1) [universe]
Data files needed to reproduce the tutorial examples of GMT
gmt-tutorial-pdf (4.5.2-1build1) [universe]
Tutorial for GMT, the Generic Mapping Tools (PDF)
gperiodic (2.0.10-5) [universe]
periodic table application
gpib-modules-source (3.2.11-0.2ubuntu6) [universe]
kernel modules for various GPIB boards
gpiv (0.6.1-2) [universe]
GUI program for Particle Image Velocimetry
gpiv-mpi (0.6.1-2) [universe]
GUI program for Particle Image Velocimetry – MPI version
gpivtools (0.6.0-1build1) [universe]
command line programs for Particle Image Velocimetry
gpivtools-mpi (0.6.0-1build1) [universe]
command line programs for Particle Image Velocimetry – MPI version
gpx2shp (0.69-3) [universe]
convert GPS or GPX file to ESRI Shape file
grads (2.0.a8-2ubuntu1) [universe]
Grid Analysis and Display System for earth science data
grass (6.4.0~rc6+42329-3build1) [universe]
Geographic Resources Analysis Support System
grass-doc (6.4.0~rc6+42329-3build1) [universe]
Geographic Resources Analysis Support System documentation
virtual package provided by grass-doc
gri (2.12.22-1) [universe]
a language for scientific illustration
gri-el (2.12.22-1) [universe]
Emacs major-mode for gri, a language for scientific graphics
gromacs (4.5.3-1ubuntu1) [universe]
Molecular dynamics simulator, with building and analysis tools
gromacs-data (4.5.3-1ubuntu1) [universe]
GROMACS molecular dynamics sim, data and documentation
gromacs-lam (4.5.3-1ubuntu1) [universe]
Transition package to gromacs-openmpi
gromacs-mpich (4.5.3-1ubuntu1) [universe]
Molecular dynamics sim, binaries for MPICH parallelization
gromacs-openmpi (4.5.3-1ubuntu1) [universe]
Molecular dynamics sim, binaries for OpenMPI parallelization
gvb (1.2.1-1) [universe]
visual simulator of 1 and 2-dimensional vibrations
gwyddion (2.22-1) [universe]
Scanning Probe Microscopy visualization and analysis tool
gwyddion-common (2.22-1) [universe]
architecture-independent files for Gwyddion SPM analysis tool
gwyddion-plugins (2.22-1) [universe]
plugins for Gwyddion SPM analysis tool
h5utils (1.12.1-1) [universe]
HDF5 files visualization tools
harminv (1.3.1-7) [universe]
extraction of complex frequencies and amplitudes from time series
harpia (1.1-0ubuntu1) [universe]
Image Processing/Computer Vision Automatic Prgm. Tool
hdf5-tools (1.8.4-patch1-2ubuntu3) [universe]
Hierarchical Data Format 5 (HDF5) – Runtime tools
hmmer (3.0-3) [universe]
profile hidden Markov models for protein sequence analysis
hodie (1.4-8) [universe]
prints the date in latin
horae (071~svn533-1) [multiverse]
interactive graphical processing and analysis of EXAFS data
hpcc (1.4.1-1) [universe]
HPC Challenge benchmark
ifeffit (2:1.2.11d-6build1) [multiverse]
An interactive program for XAFS analysis
ifrit (3.3.2-1) [universe]
a powerful tool for visualizing 3-dimensional data sets
igv (1.5.21-1) [multiverse]
Integrative Genomics Viewer
imagej (1.44i-1) [universe]
Image processing program inspired by NIH Image for the Macintosh
imview (1.1.9c-7build1) [universe]
Image viewing and analysis application
infernal (1.0.2-1) [universe]
inference of RNA secondary structural alignments
israndom (1.0.7-3ubuntu1) [universe]
nonclassical randomness test using data compressors
itksnap (2.0.0+cvs20100615-1) [universe]
semi-automatic segmentation of structures in 3D images
jblas (1.1.1-2) [universe]
A fast linear algebra library for Java
jemboss (6.3.1-6) [universe]
graphical user interface to EMBOSS
kalign (2.04-2) [universe]
Global and progressive multiple sequence alignment
kalzium (4:4.6.2-0ubuntu2)
periodic table and chemistry tools for KDE
kalzium-data (4:4.6.2-0ubuntu2)
data files for Kalzium
kstars (4:4.6.2-0ubuntu2)
desktop planetarium for KDE
kstars-data (4:4.6.2-0ubuntu2)
data files for KStars desktop planetarium
kxterm (2006.dfsg.2-14.1) [universe]
CERNLIB data analysis suite – KUIP terminal emulator
last-align (146-1) [universe]
genome-scale comparison of biological sequences
libball1.3 (1.3.2-2ubuntu3) [universe]
Biochemical Algorithms Library
libballview1.3 (1.3.2-2ubuntu3) [universe]
Biochemical Algorithms Library, VIEW framework
libbio-ruby (1.4.1-1) [universe]
bioruby tools for computational molecular biology
libbio-ruby1.8 (1.4.1-1) [universe]
bioruby tools for computational molecular biology
libbiojava-java (1:1.7.1-1) [universe]
Java API to biological data and applications
libbiojava-java-demos (1:1.7.1-1) [universe]
Example programs for BioJava
libbiojava1.7-java (1:1.7.1-1) [universe]
Java API to biological data and applications
libgeotiff-epsg (1.2.5-1) [multiverse]
the GeoTIFF library — EPSG Geodetic Parameter Dataset
libghemical-data (2.99.1-1) [universe]
Molecular Modelling Library (data files)
libgpib-bin (3.2.11-0.2ubuntu6) [universe]
libgpib support applications and configuration
libgrib-api-data ( [universe]
grib_api definition files
libhkl4 (4.0.3-2) [universe]
diffractometer computation control library
liblas-bin (1.2.1-2) [universe]
ASPRS LiDAR data translation toolset
liblinear-tools (1.6+dfsg-1) [universe]
Standalone applications for LIBLINEAR
libnecpp-dev (1.5.0+cvs20101003-2ubuntu1) [universe]
development files for libnecpp
libnecpp0 (1.5.0+cvs20101003-2ubuntu1) [universe]
library to use NEC2++
libocas-tools (0.93-1) [universe]
Standalone applications implementing the OCAS solver
libopenmeeg1 (2.0.0.dfsg-2build2) [universe]
library for solving EEG and MEG forward and inverse problems
libqgis1.4.0 (1.4.0+12730-5ubuntu1) [universe]
Quantum GIS – shared libraries
libstxxl1 (1.3.0-1) [universe]
C++ STL drop-in replacement for extremely large datasets
libworldwind-java (0.5.0-8) [multiverse]
3D Virtual Globe
libxy-bin (0.6-1) [universe]
xylib – utilities
lipsia (1.6.0-4ubuntu1) [universe]
analysis suite for MRI and fMRI data
loki ( [universe]
MCMC linkage analysis on general pedigrees
loki-doc (

) [universe]

Postscript manual for loki
lutefisk (1.0.5a.cleaned-1) [universe]
de novo interpretation of peptide CID spectra
mafft (6.833-1) [universe]
Multiple alignment program for amino acid or nucleotide sequences
maq (0.7.1-3) [universe]
maps short fixed-length polymorphic DNA sequence reads to reference sequences
massxpert (2.4.0-1ubuntu1) [universe]
linear polymer mass spectrometry software
massxpert-data (2.4.0-1ubuntu1) [universe]
linear polymer mass spectrometry software – arch-indep data
mayavi2 (3.4.0-1) [universe]
A scientific visualization package for 2-D and 3-D data
meep (1.1.1-6) [universe]
software package for FDTD simulation
meep-mpi (1.1.1-6) [universe]
software package for FDTD simulation, parallel (mpich) version
meep-mpich (1.1.1-9) [universe]
software package for FDTD simulation, parallel (mpich) version
meep-openmpi (1.1.1-7) [universe]
software package for FDTD simulation, parallel (OpenMPI) version
melting (4.3c-1) [universe]
compute the melting temperature of nucleic acid duplex
melting-gui (4.3c-1) [universe]
graphical interface to compute the melting temperature of nucleic acid duplex
merkaartor (0.17.2-1) [universe]
map editor for
mgltools-bhtree (1.5.4.cvs.20100912-1build1) [multiverse]
Bhtree library extension module
mgltools-dejavu (1.5.4.cvs.20100912-1) [multiverse]
visualization of 3D geometry using the OpenGL with Python
mgltools-geomutils (1.5.4.cvs.20100912-1build1) [multiverse]
Python library for geometric analyses
mgltools-mglutil (1.5.4.cvs.20100912-1) [multiverse]
Molecular Graphics Laboratory utility collection
mgltools-molkit (1.5.4.cvs.20100912-1) [multiverse]
Python classes to read and manipulate molecules
mgltools-networkeditor (1.5.4.cvs.20100912-1) [multiverse]
Python GUI library for the editing of networks
mgltools-opengltk (1.5.4.cvs.20100912-1build1) [multiverse]
opengltk python extension
mgltools-pmv (1.5.4.cvs.20100912-2) [multiverse]
Python-based Molecular Viewer
mgltools-pyautodock (1.5.4.cvs.20100912-1) [multiverse]
Python implementation of autodock
mgltools-pybabel (1.5.4.cvs.20100912-1) [multiverse]
molecular structure file access and interpretation
mgltools-pyglf (1.5.4.cvs.20100912-1build1) [multiverse]
GLF library Python extension to write text in OpenGL
mgltools-scenario (1.5.4.cvs.20090514-1) [multiverse]
Python-based viewer of molecular structures
mgltools-sff (1.5.4.cvs.20100912-1build1) [multiverse]
Simple Force Field for Python
mgltools-support (1.5.4.cvs.20100912-1) [multiverse]
Update mechanism of MGLTools
mgltools-symserv (1.5.4.cvs.20100912-1) [multiverse]

Symetry server

mgltools-utpackages (1.5.4.cvs.20100912-1.1) [multiverse]
UT Austin software Python extensions
mgltools-viewerframework (1.5.4.cvs.20100912-1ubuntu1) [multiverse]
ViewerFramework supports building visualization applications
mgltools-vision (1.5.4.cvs.20100912-1ubuntu1) [multiverse]
Python-based Visual Programming Environment
mgltools-volume (1.5.4.cvs.20100912-1) [multiverse]
Volume rendering Python package
minc-tools (2.1.00-1) [universe]
MNI medical image format tools
minisat2 (1:2.2.0-2) [universe]
Fast and lightweight SAT solver
mipe (1.1-3) [universe]
Tools to store PCR-derived data
mitools (1.8.1-3ubuntu1) [universe]
view, convert and perform basic maths with medical image datasets
mmass (3.9.0-1ubuntu1) [universe]
Mass spectrometry tool for proteomics
mn-fit (5.13-7) [universe]
interactive analysis package for fitting data and histograms
mn-fit-common (5.13-7) [universe]
common files for Mn_Fit
molphy (2.3b3-5) [multiverse]
Program Package for MOLecular PHYlogenetics
montecarlo-base (2006.dfsg.2-5ubuntu3) [universe]
[Physics] Common files for CERNLIB Monte Carlo libraries
montecarlo-data (2006.dfsg.2-5ubuntu3) [universe]
[Physics] data for CERNLIB Monte Carlo libraries
mopac7-bin (1.15-4) [universe]
Semi-empirical Quantum Chemistry Library (binaries)
mpb (1.4.2-16) [universe]
MIT Photonic-Bands
mpb-mpi (1.4.2-16) [universe]
MIT Photonic-Bands, parallel (mpich) version
mpqc (2.3.1-6) [universe]
The Massively Parallel Quantum Chemistry Program
mpqc-openmpi (2.3.1-6) [universe]
The Massively Parallel Quantum Chemistry Program (OpenMPI Version)
mpqc-support (2.3.1-6) [universe]
Support programs and tools for MPQC
mriconvert (2.0-2) [universe]
medical image file conversion utility
mricron (0.20101102.1~dfsg.1-1) [universe]
magnetic resonance image conversion, viewing and analysis
mricron-data (0.20101102.1~dfsg.1-1) [universe]
data files for MRIcron
mrpt-apps (1:0.9.4-1ubuntu1) [universe]
Mobile Robot Programming Toolkit – Console and GUI applications
mrpt-libs (1:0.9.4-1ubuntu1) [universe]
Mobile Robot Programming Toolkit – All the libraries
mrtrix (0.2.8-3) [universe]
diffusion-weighted MRI white matter tractography
mssstest (3.0-2) [multiverse]
Normalisation of disease scores for patients with Multiple Sclerosis
mummer (3.22~dfsg-2) [universe]
Efficient sequence alignment of full genomes
muscle (3.70+fix1-2) [universe]
Multiple alignment program of protein sequences
music-bin (1.0.7-1) [universe]
Multi-Simulation Coordinator for MPI — Utilities
mustang (3.2.1-1) [universe]
multiple structural alignment of proteins
mustang-testdata (3.2.1-1) [universe]
multiple structural alignment of proteins, test data
narval-generic-actors (1.10.2-2) [universe]
An Ada framework for Distributed Acquisition Systems (generic actors)
narval-servers (1.10.2-2) [universe]
An Ada framework for Distributed Acquisition Systems (servers)
narval-tests-actors (1.10.2-2) [universe]
An Ada framework for Distributed Acquisition Systems (tests actors)
narval-utils (1.10.2-2) [universe]
An Ada framework for Distributed Acquisition Systems (utils)
ncbi-epcr (2.3.12-1) [universe]
Tool to test a DNA sequence for the presence of sequence tagged sites
ncbi-rrna-data (6.1.20090809-2) [universe]
large rRNA BLAST databases distributed with the NCBI toolkit
ncbi-tools-bin (6.1.20090809-2) [universe]
NCBI libraries for biology applications (text-based utilities)
ncbi-tools-x11 (6.1.20090809-2) [universe]
NCBI libraries for biology applications (X-based utilities)
ncoils (2002-1) [universe]
[Biology] coiled coil secondary structure prediction
ncview (1.93g-1build1) [universe]
A X11 visual browser for NetCDF format files
necpp (1.5.0+cvs20101003-2ubuntu1) [universe]
NEC2 Evolution Antenna Modelling System
netcdf-bin (1:4.1.1-5build1) [universe]
Programs for reading and writing NetCDF files
njplot (2.3-3) [universe]
A phylogenetic tree drawing program
oasis3 (3.3.beta.dfsg.1-5) [universe]
Coupler for exchanging fields between components of Earth system models
oasis3-examples (3.3.beta.dfsg.1-5) [universe]
Example models for the OASIS climate model coupler
objcryst-fox ( [universe]
Free Objects for Xtallography
odin (1.8.1-3ubuntu1) [universe]
develop, simulate and run magnetic resonance sequences
ogdi-bin (3.2.0~beta2-6) [universe]
Open Geographic Datastore Interface Library — utilities
openbabel (2.2.3-1build2) [universe]
Chemical toolbox utilities
opencascade-draw (6.3.0.dfsg.1-6) [universe]
OpenCASCADE CAE platform shared library
opencascade-wok (6.3.0.dfsg.1-6) [universe]
OpenCASCADE CAE platform shared library
openjump (1.0-4) [multiverse]
Open Java Unified Mapping Platform JUMP
openmeeg-tools (2.0.0.dfsg-2build2) [universe]
tools for solving EEG and MEG forward and inverse problems
openmx (3.2.4.dfsg-3build1) [universe]
Package for nano-scale material simulations
openrocket (1.1.3-3) [universe]
Model Rocket Simulator
openturns-examples (0.13.2-8) [universe]
examples of OpenTURNS functionalities
openturns-validation (0.13.2-8) [universe]
validation files for OpenTURNS
openturns-wrapper (0.13.2-8) [universe]
example of a wrapper for OpenTURNS
openuniverse (1.0beta3.1+dfsg-1build1) [universe]
3D Universe Simulator
openuniverse-common (1.0beta3.1+dfsg-1build1) [universe]
3D Universe Simulator data files
opj2dat (20080225-2ubuntu1) [universe]
OriginLab Origin project files to data files converter
opticalraytracer (2.8-2) [universe]
A virtual lens design workshop
origami (0.7.4-1) [universe]
command-line management tool for Folding @ Home clients
ossim-core (1.7.21-1build1) [universe]
The OSSIM core utilities
ovito (0.9.2-1build1) [universe]
visualization and analysis tool for atomistic simulation data (1.97+cvs20080110-2build3) [universe]
generic visualization tool (Gantt chart and more)
paraview (3.8.1-2ubuntu3) [universe]
Parallel Visualization Application
paw (1:2.14.04.dfsg.2-7) [universe]
Physics Analysis Workstation – a graphical analysis program
paw++ (1:2.14.04.dfsg.2-7) [universe]
Physics Analysis Workstation (Lesstif-enhanced version)
paw-common (1:2.14.04.dfsg.2-7) [universe]
Physics Analysis Workstation (common files)
paw-demos (1:2.14.04.dfsg.2-7) [universe]
Physics Analysis Workstation examples and tests
perlprimer (1.1.19-1) [universe]
Graphical design of primers for PCR
perlprimer-doc (1.1.19-1) [universe]
Tutorial to perlprimer
php5-gpib (3.2.11-0.2ubuntu6) [universe]
libgpib PHP5 bindings
phylip (1:3.69-1) [multiverse]
package of programs for inferring phylogenies
phylip-doc (1:3.69-1) [multiverse]
package of programs for inferring phylogenies
phyml (2:20100123-1) [universe]
Phylogenetic estimation using Maximum Likelihood
picard-tools (1.27-1) [universe]
Command line tools to manipulate SAM and BAM files
picosat (936-1) [universe]
SAT solver with proof and core support
planets (0.1.13-11) [universe]
Gravitation simulation of planetary bodies
plink (1.07-1) [universe]
whole-genome association analysis toolset
poa (2.0+20060928-2) [universe]
Partial Order Alignment for multiple sequence alignment
praat (5.2.3-1) [universe]
program for speech analysis and synthesis
primer3 (2.2.3-1) [universe]
Tool to design flanking oligo nucleotides for DNA amplification
probcons (1.12-7) [universe]
PROBabilistic CONSistency-based multiple sequence alignment
probcons-extra (1.12-7) [universe]
Extra programs from the probcons package
proda (1.0-7) [universe]
multiple alignment of protein sequences
proj (4.7.0-1) [universe]
Cartographic projection filter and library (transitional package)
proj-bin (4.7.0-1) [universe]
Cartographic projection library (tools)
psi3 (3.4.0-2) [universe]
Quantum Chemical Program Suite
psychopy (1.61.03.dfsg-1) [universe]
environment for creating psychology stimuli in Python
pymca (4.4.1p1-1ubuntu1) [universe]
Python applications and toolkit for X-ray fluorescence analysis
pymca-data (4.4.1p1-1ubuntu1) [universe]
Architecture independent data files for PyMca
pymol (1.2r2-1.1build1) [universe]
Molecular Graphics System
python-ifeffit (2:1.2.11d-6build1) [multiverse]
Python GUI interface and extensions for IFEFFIT
python-necpp (1.5.0+cvs20101003-2ubuntu1) [universe]
Python module for using NEC2++
python-nifti (0.20100607.1-2build1) [universe]
Python interface to the NIfTI I/O libraries
python-pyepl (1.1.0-3build2) [universe]
module for coding psychology experiments in Python
python-pyepl-common (1.1.0-3build2) [universe]
module for coding psychology experiments in Python
python-pyode (1.2.0-4+cvs20090320build1) [universe]
Python bindings for The Open Dynamics Engine
qfits-tools (6.2.0-2) [universe]
FITS manipulation tools
qgis (1.4.0+12730-5ubuntu1) [universe]
Geographic Information System (GIS)
qgis-common (1.4.0+12730-5ubuntu1) [universe]
Quantum GIS – architecture-independent data
qgis-plugin-grass (1.4.0+12730-5ubuntu1) [universe]
GRASS plugin for Quantum GIS
qgis-plugin-grass-common (1.4.0+12730-5ubuntu1) [universe]
GRASS plugin for Quantum GIS – architecture-independent data
qmc (0.94-3build1) [universe]
Quine McClusky Simplification Tool
qsearch-tools (1.0.8-3) [universe]
qsearch machine-learning command-line utilities
qtdmm (0.8.13-3) [universe]
GUI for digital multimeter
r-cran-colorspace (1.0.1-1build1) [universe]
GNU R Color Space Manipulation
r-cran-epibasix (1.1-2) [universe]
GNU R Elementary Epidemiological Functions
r-cran-genetics (1.3.4-1) [universe]
GNU R package for population genetics
r-cran-haplo.stats (1.4.4-1) [universe]
GNU R package for haplotype analysis
r-cran-maptools (1:0.7-38-1) [multiverse]
GNU R Tools for reading and handling spatial objects
r-cran-msm (1.0-1) [universe]
GNU R Multi-state Markov and hidden Markov models in continuous time
r-cran-qvalue (1.24.0-1) [universe]
GNU R package for Q-value estimation for FDR control
r-cran-randomforest (4.5-36-1) [univer


GNU R package implementing the random forest classificator
r-cran-sp (1:0.9-73-1) [universe]
GNU R classes and methods for spatial data
r-cran-spc (1:0.3-1) [universe]
GNU R Statistical Process Control
r-cran-surveillance (1.2-1-1) [multiverse]
development and the evaluation of epidemiological outbreak detection algorithms
r-cran-vcd (1:1.2-9-1) [universe]
GNU R Visualizing Categorical Data
r-cran-xtable (1:1.5-6-1) [universe]
GNU R coerce data to LaTeX and HTML tables
r-other-bio3d (1.1-0-1) [universe]
GNU R package for biological structure analysis
rasmol (2.7.5-2) [universe]
Visualize biological macromolecules
rasmol-doc (2.7.5-2) [universe]
Documentation for rasmol
raster3d (2.9-2-1) [multiverse]
tools for generating images of proteins or other molecules
readseq (1-8) [universe]
[Biology] Conversion between sequence formats
rnahybrid (2.1-2) [universe]
Fast and effective prediction of microRNA/target duplexes
robot-player (3.0.2+dfsg-2ubuntu1) [universe]
Networked server for robots and sensors
robot-player-dev (3.0.2+dfsg-2ubuntu1) [universe]
Networked server for robots and sensors – development package
robot-player-doc (3.0.2+dfsg-2ubuntu1) [universe]
Networked server for robots and sensors (documentation)
rocs (4:4.6.2-0ubuntu2)
graph theory IDE
saga (2.0.4+dfsg-2) [universe]
System for Automated Geoscientific Analyses
salome (5.1.3-12ubuntu1) [universe]
Numerical simulation pre- and post-processor
salome-common (5.1.3-12ubuntu1) [universe]
Numerical simulation pre- and post-processor
salome-extras (5.1.3-12ubuntu1) [universe]
Numerical simulation pre- and post-processor
samtools (0.1.12a-1ubuntu1) [universe]
processing sequence alignments in SAM and BAM formats
sat4j (2.2.0-3) [universe]
Efficient library of SAT solvers in Java
science-machine-learning (0.12) [universe]
Debian Science Machine Learning packages
science-nanoscale-physics (0.12) [universe]
Debian Science Nanoscale Physics packages
science-nanoscale-physics-dev (0.12) [universe]
Debian Science Nanoscale Physics development packages
seaview (1:4.2.10-1) [multiverse]
Multiplatform interface for sequence alignment and phylogeny
seesat5 (0.90.10-1.1) [universe]
a satellite location program
sextractor (2.4.4-1) [universe]
source extractor for astronomical images
shogun-cmdline (0.9.3-4ubuntu9) [universe]
Large Scale Machine Learning Toolbox
shogun-dbg (0.9.3-4ubuntu9) [universe]
Large Scale Machine Learning Toolbox
shogun-elwms (0.9.3-4ubuntu9) [universe]
Large Scale Machine Learning Toolbox
shogun-octave (0.9.3-4ubuntu9) [universe]
Large Scale Machine Learning Toolbox
shogun-octave-modular (0.9.3-4ubuntu9) [universe]
Large Scale Machine Learning Toolbox
shogun-python (0.9.3-4ubuntu9) [universe]
Large Scale Machine Learning Toolbox
shogun-python-modular (0.9.3-4ubuntu9) [universe]
Large Scale Machine Learning Toolbox
shogun-r (0.9.3-4ubuntu9) [universe]
Large Scale Machine Learning Toolbox
sibsim4 (0.20-1) [universe]
align expressed RNA sequences on a DNA template
sigma-align (1.1.3-1) [universe]
Simple greedy multiple alignment of non-coding DNA sequences
sim4 (0.0.20030921-3) [universe]
tool for aligning cDNA and genomic DNA
sixpack (1:0.66-3ubuntu1) [multiverse]
full-featured package for XAS analysis
slang-xfig (0.2.0~.35-1) [universe]
produce plots and drawings through Xfig’s fig2dev in S-Lang
spass (3.7-2) [universe]
An automated theorem prover for first-order logic with equality
spatialite-bin (2.4.0~rc2-5) [universe]
Geospatial extension for SQLite – tools
ssake (3.7-1) [universe]
genomics application for assembling millions of very short DNA sequences
ssake-examples (3.7-1) [universe]
example data for SSAKE, a genomic assembler of short reads
staden-io-lib-utils (1.12.4-1) [universe]
programs for maniuplating DNA sequencing files
stardata-common (0.7) [universe]
Common framework to manage astronomy packages
starplot (0.95.5-4) [universe]
3-dimensional perspective star map viewer
stellarium (0.10.5-1) [universe]
real-time photo-realistic sky generator
stellarium-data (0.10.5-1) [universe]
Stellarium data files
survex (1.1.14-1) [universe]
cave surveying and mapping software
survex-aven (1.1.14-1) [universe]
sophisticated cave survey viewer for Survex
survex-svxedit (1.1.14-1) [universe]
survey data editor for Survex
syrthes (3.4.2-dfsg1-3) [universe]
Transient thermal simulations in complex solid geometries
t-coffee (8.84-1) [universe]
Multiple Sequence Alignment
t-coffee-doc (8.84-1) [universe]
PDF and HTML accompaning documents to T-Coffee
t-coffee-examples (8.84-1) [universe]
annotated examples for the use of T-Coffee
tcd-utils (20061127-2) [universe]
convert Tide Constituent Database (TCD) files
tessa (0.3.1-4ubuntu4) [universe]
simulation of 3D optical systems with the FDTD method
tessa-mpi (0.3.1-4ubuntu4) [universe]

simulation of 3D optical systems using FDTD on LAM-MPI clusters
therion (5.3.3-1ubuntu1) [universe]
Cave surveying – 2D and 3D drawing software
therion-doc (5.3.3-1ubuntu1) [universe]
Documentation for Therion Cave surveying software
therion-viewer (5.3.3-1ubuntu1) [universe]
Cave surveying – 3D viewer for therion models
theseus (1.5.5-1) [universe]
superimpose macromolecules using maximum likelihood
tigr-glimmer (3.02-2) [universe]
Gene detection in archea and bacteria
transcalc (0.14-5) [universe]
microwave and RF transmission line calculator
tree-ppuzzle (5.2-6) [universe]
Parallelized reconstruction of phylogenetic trees by maximum likelihood
tree-puzzle (5.2-6) [universe]
Reconstruction of phylogenetic trees by maximum likelihood
tree-puzzle-doc (5.2-6) [universe]
Reconstruction of phylogenetic trees by maximum likelihood
treeviewx (0.5.1-7) [universe]
Displays and prints phylogenetic trees
triangle-bin (1.6-2) [multiverse]
High-quality 2-D mesh generator binary programs
tunnelx (20090624-2) [universe]
Cave Survey drawing software
ugene (1.9.1+repack-0ubuntu1) [universe]
integrated bioinformatics toolkit
ugene-data (1.9.1+repack-0ubuntu1) [universe]
required data for UGENE – integrated bioinformatics toolkit
units-filter (3.1-2) [universe]
Parser for expressions concerning physical values
v-sim (3.5.2-1) [universe]
Visualize atomic structures
v-sim-common (3.5.2-1) [universe]
Visualize atomic structures (support files)
v-sim-plugins (3.5.2-1) [universe]
Plugins for V_Sim (a 3D visualization package)
velvet (1.0.15~nozlibcopy-2) [universe]
Nucleic acid sequence assembler for very short reads
velvet-example (1.0.15~nozlibcopy-2) [universe]
Example data for the Velvet sequence assembler
viewmol (2.4.1-17build1) [universe]
A graphical front end for computational chemistry programs.
vmtk (0.9.0-2) [multiverse]
the Vascular Modeling Toolkit
vowpal-wabbit (5.0-1ubuntu1) [universe]
fast and scalable online machine learning algorithm
voxbo (1.8.5~svn1172-1) [universe]
processing, statistical analysis, and display of brain imaging data
weka (3.6.0-3) [universe]
Machine learning algorithms for data mining tasks
wise (2.4.1-8) [universe]
comparison of biopolymers, commonly DNA and protein sequences
worldwind (0.5.0-8) [multiverse]
3D Virtual Globe
xbs (0-8) [universe]
3-d models and movies of molecules
xdrawchem (1.9.9-5) [universe]
Chemical structures and reactions editor
xfoil (6.97.dfsg-3) [universe


program for the design and analysis of subsonic airfoils
xmakemol (5.16-5ubuntu1) [universe]
A program for visualizing atomic and molecular systems
xmds (1.6.6-4) [universe]
eXtensible Multi-Dimensional Simulator
xorsa (0.7.0-15) [universe]
tool for Celestial Mechanics investigations
xplot (1.19-9build1) [universe]
simple on-screen x-y column data plotter ( [universe]
fast tool to graph and visualize lots of data
xtide (2.11-1) [universe]
provides tide and current predictions
xtide-coastline (20020202-1) [universe]
coastline data for xtide
xtide-data (20100529-1) [universe]
Harmonics data for xtide
xtide-data-nonfree (20100529-1) [multiverse]
Harmonics data for xtide (Canada, Netherlands, Germany and UK)
ygraph (0.16~cvs20090218-1ubuntu1) [universe]
plot and animate data sets
yorick-mira (0.9.9+dfsg1-2) [universe]
optical intreferometry image reconstruction within Yorick
yorick-mpy-common (2.1.06+dfsg-2ubuntu1) [universe]
Message Passing Yorick (common files)
yorick-mpy-mpich2 (2.1.06+dfsg-2ubuntu1) [universe]
Message Passing Yorick (MPICH2 build)
yorick-mpy-openmpi (2.1.06+dfsg-2ubuntu1) [universe]
Message Passing Yorick (OpenMPI build)
z88 (13.0.0+dfsg2-1) [universe]
Finite Element Analysis Program – runtime
zimpl (3.1.0+dfsg-1) [universe]
mathematical modeling language for optimization problems
zygrib (3.9.2-1) [universe]
Weather data visualization, GRIB file viewer
zygrib-maps (3.9.2-1) [universe]
Maps for zyGrib weather visualization


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