Software Packages in "karmic", Subsection science

abinit (5.3.4.dfsg-3) [universe]

A package for electronic structure calculations

abinit-doc (5.3.4.dfsg-3) [universe]

A package for electronic structure calculations

achilles (2-8) [universe]

An artificial life and evolution simulator

adun.app (0.8.2-1ubuntu3) [universe]

Molecular Simulator for GNUstep

aeskulap (0.2.2b1-4) [universe]

medical image viewer and DICOM network client

altree (1.0.1-3) [universe]

program to perform phylogeny based analyses

altree-examples (1.0.1-3) [universe]

example files for ALTree

amap-align (2.2-1) [universe]

Protein multiple alignment by sequence annealing

apbs (1.1.0-1) [universe]

Adaptive Poisson Boltzmann Solver

arb (0.0.20071207.1-7ubuntu1) [multiverse]

Integrated package for sequence database handling and analysis

arb-common (0.0.20071207.1-7ubuntu1) [multiverse]

Integrated package for sequence database handling and analysis

arb-doc (0.0.20071207.1-7ubuntu1) [multiverse]

Integrated package for sequence database handling and analysis

astronomical-almanac (5.6-3) [universe]

astronomical almanac - calculate planet and star positions

autodock (4.2.1+rc1-2) [universe]

analysis of ligand binding to protein structure

autodock-test (4.2.1+rc1-2) [universe]

test files for AutoDock

autodocktools (1.5.4.cvs.20090603-1) [multiverse]

GUI to help set up, launch and analyze AutoDock dockings

autogrid (4.2.1+rc1-2) [universe]

pre-calculate binding of ligands to their receptor

autogrid-test (4.2.1+rc1-2) [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 (2.0b7-4.2ubuntu1) [universe]

Auto-adaptive genetic system for Artificial Life research

avida-qt-viewer (2.0b7-4.2ubuntu1) [universe]

qt viewer for avida

avida-viewer (2.0b7-4.2ubuntu1) [universe]

ncurses viewer for avida

avogadro (0.9.7-1ubuntu2) [universe]

Molecular Graphics and Modelling System

bauble (0.9.3-1ubuntu1) [universe]

biodiversity collection manager software application

bibus (1.4.3.2-3) [universe]

bibliographic database

biococoa.app (1.6.0-8build1) [universe]

biological sequence file format conversion applet for GNUstep

bioperl (1.6.0-2ubuntu1) [universe]

Perl tools for computational molecular biology

bioperl-run (1.5.2.100-1) [universe]

Wrapper modules for BioPerl

biosquid (1.9g+cvs20050121-2) [universe]

utilities for biological sequence analysis

bkchem (0.13.0-1) [universe]

Python based chemical structures editor

blast2 (1:2.2.20.20090301-1) [universe]

Basic Local Alignment Search Tool

blinken (4:4.3.2-0ubuntu1) [universe]

KDE 4 version of the Simon electronic memory game

bodr (8-1) [universe]

Blue Obelisk Data Repository

boinc-app-milkyway (0.18d-1) [universe]

Milkyway@home application for the BOINC client

boinc-app-seti (5.13+cvs20060510-6) [universe]

SETI@home application for the BOINC client

boxshade (3.3.1-4) [universe]

Pretty-printing of multiple sequence alignments

caret (5.6.1~dfsg.1-4ubuntu2) [universe]

Computerized Anatomical Reconstruction and Editing Toolkit

cassbeam (1.0-8) [universe]

A program for Cassegrain antenna modelling

cbflib-bin (0.7.9.1-3) [universe]

utilities to manipulate CBF files

celestia-common (1.5.1+dfsg1-2ubuntu1) [universe]

Datafiles for Celestia, a real-time visual space simulation

celestia-common-nonfree (1.5.1-1) [multiverse]

Non-free datafiles for Celestia, a real-time visual space simulation

celestia-glut (1.5.1+dfsg1-2ubuntu1) [universe]

A real-time visual space simulation (GLUT frontend)

cernlib (2006.dfsg.2-14) [universe]

CERNLIB data analysis suite - general use metapackage

cernlib-core (2006.dfsg.2-14) [universe]

CERNLIB data analysis suite - main libraries and programs

cernlib-core-dev (2006.dfsg.2-14) [universe]

CERNLIB data analysis suite - core development files

cernlib-extras (2006.dfsg.2-14) [universe]

CERNLIB data analysis suite - extra programs

cernlib-montecarlo (2006.dfsg.2-5ubuntu1) [universe]

CERNLIB Monte Carlo libraries

cgns-convert (2.5.3-3) [universe]

CFD General Notation System - Conversion tools

chemtool (1.6.12-1) [universe]

Chemical structures drawing program

clustalw (2.0.10-1) [multiverse]

global multiple nucleotide or peptide sequence alignment

clustalw-mpi (0.15-1) [multiverse]

MPI-distributed global sequence alignment with ClustalW

clustalx (1.83-4) [multiverse]

GUI for Clustal W

coinor-csdp (6.0.1-1) [universe]

A software package for semidefinite programming

coinor-libclp0 (1.10.0-1) [universe]

Coin-or linear programming solver

coinor-libclp0-dbg (1.10.0-1) [universe]

Coin-or linear programming solver

coinor-libcoinutils0 (2.5.0-1) [universe]

Coin-or collection of utility classes

coinor-libcoinutils0-dbg (2.5.0-1) [universe]

Coin-or collection of utility classes

coinor-libdylp0 (1.5.0-1) [universe]

Linear programming solver using the dynamic simplex algorithm

coinor-libosi0 (0.100.0-1) [universe]

COIN-OR Open Solver Interface

coinor-libvol0 (1.1.7-1) [universe]

Coin-or linear programming solver

complearn-gui (1.0.7-1build1) [universe]

interactive 3d data mining tool and demo for universal machine learning

complearn-tools (1.1.5-1) [universe]

complearn machine-learning command-line utilities

ctsim (5.1.3-1) [universe]

Computed tomography simulator

ctsim-help (5.1.3-1) [universe]

Online help file for CTSim

dans-gdal-scripts (0.14-1) [universe]

GDAL contributed tools by Geographic Information Network of Alaska

dcmtk (3.5.4-3) [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 (2.28.14-1build1) [universe]

converts DICOM files into the NIfTI format

drawmap (2.5-3) [universe]

draws customized maps, using raw USGS data files

dsdp (5.8-6) [universe]

Software for Semidefinite Programming

dx (1:4.4.4-2ubuntu2) [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 (0.6-5) [universe]

Draw high-quality molecules and 2D chemical formulas

ecs (1.4.0-1) [universe]

Code_Saturne Preprocessor

elmer (5.5.0.svn.4214.dfsg-1ubuntu2) [universe]

Finite element package for multiphysics problems

elmer-common (5.5.0.svn.4214.dfsg-1ubuntu2) [universe]

Elmer multiphysics finite element architecture-independent files

embassy-domainatrix (0.1.0+20080715-1) [universe]

Extra EMBOSS commands to handle domain classification file

embassy-domalign (0.1.0+20080715-1) [universe]

Extra EMBOSS commands for protein domain alignment

emboss (6.0.1-11) [universe]

the european molecular biology open software suite

emboss-data (6.0.1-11) [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-1ubuntu1) [universe]

pseudorandom number sequence test program

epigrass (2.0b3~dfsg-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

exonerate (2.2.0-1) [universe]

generic tool for pairwise sequence comparison

extrema (4.3.6-1) [universe]

powerful visualization and data analysis tool

fastdnaml (1.2.2-8) [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

fityk (0.8.8-1) [universe]

general-purpose nonlinear curve fitting and data analysis

fsl (4.1.4-2ubuntu1) [multiverse]

analysis tools for FMRI, MRI and DTI brain imaging

fslview (3.1.2+4.1.4-1build2) [universe]

viewer for (f)MRI and DTI data

fslview-doc (3.1.2+4.1.4-1build2) [universe]

Documentation for FSLView

g3data (1:1.5.3-1ubuntu1) [universe]

extract data from scanned graphs

gabedit (2.2.0-1) [universe]

graphical user interface to Ab Initio packages

gamgi (0.13.10-0ubuntu2) [universe]

construct, view and analyse atomic structures

gamgi-data (0.13.10-0ubuntu2) [universe]

extra data for the gamgi atomic structure display program

garlic (1.6-1) [universe]

A visualization program for biomolecules

gausssum (2.1.6-1) [universe]

parse and display Gaussian, GAMESS, and etc's output

gcrystal (0.8.6-1ubuntu7) [universe]

lightweight crystal structures visualizer

gcu-bin (0.8.6-1ubuntu7) [universe]

GNOME chemistry utils (helper applications)

gcu-plugin (0.8.6-1ubuntu7) [universe]

GNOME chemistry utils (browser plugin)

gdal-bin (1.5.4-4) [universe]

Geospatial Data Abstraction Library - Utility programs

gdis (0.90-1) [universe]

molecular display

gdpc (2.2.4-3) [universe]

visualiser of molecular dynamic simulations

gdpc-examples (2.2.4-3) [universe]

example files for the gdpc program

geant321 (1:3.21.14.dfsg-8ubuntu1) [universe]

[Physics] Particle detector description and simulation tool

geant321-data (1:3.21.14.dfsg-8ubuntu1) [universe]

[Physics] Data for GEANT 3.21 detector simulator

gelemental (1.2.0-3ubuntu2) [universe]

Periodic Table viewer

gelemental-dbg (1.2.0-3ubuntu2) [universe]

Periodic Table viewer (main application debugging symbols)

genesis (2.2.1-12build1) [universe]

general-purpose neural simulator

geotiff-bin (1.2.5-1) [universe]

the GeoTIFF library -- tools

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

glam2 (1064-1) [universe]

gapped protein motifs from unaligned sequences

gmt (4.4.0-1) [universe]

Generic Mapping Tools

gmt-doc-pdf (4.4.0-1) [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 (4.4.0-1) [universe]

Tutorial for GMT, the Generic Mapping Tools (PDF)

gperiodic (2.0.10-5) [universe]

periodic table application

gpib-modules-source (3.2.11-0.2ubuntu3) [universe]

kernel modules for various GPIB boards

gpiv (0.6.1-1) [universe]

GUI program for Particle Image Velocimetry

gpiv-mpi (0.6.1-1) [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

grass (6.4.0~rc5-2) [universe]

Geographic Resources Analysis Support System

grass-doc (6.4.0~rc5-2) [universe]

Geographic Resources Analysis Support System documentation

grass-doc

virtual package provided by grass-doc

gri (2.12.18-1) [universe]

a language for scientific illustration

gri-el (2.12.18-1) [universe]

Emacs major-mode for gri, a language for scientific graphics

gromacs (4.0.5-4) [universe]

Molecular dynamics simulator, with building and analysis tools

gromacs-data (4.0.5-4) [universe]

GROMACS molecular dynamics sim, data and documentation

gromacs-lam (4.0.5-4) [universe]

Molecular dynamics sim, binaries for LAM-MPI parallelization

gromacs-mpich (4.0.5-4) [universe]

Molecular dynamics sim, binaries for MPICH parallelization

gromacs-openmpi (4.0.5-4) [universe]

Molecular dynamics sim, binaries for OpenMPI parallelization

gvb (1.1.2-2ubuntu1) [universe]

visual simulator of 1 and 2-dimensional vibrations

gwyddion (2.16-1) [universe]

Scanning Probe Microscopy visualization and analysis tool

gwyddion-common (2.16-1) [universe]

architecture-independent files for Gwyddion SPM analysis tool

gwyddion-plugins (2.16-1) [universe]

plugins for Gwyddion SPM analysis tool

h5utils (1.12-1) [universe]

HDF5 files visualization tools

harminv (1.3.1-2) [universe]

extraction of complex frequencies and amplitudes from time series

harpia (1.0-0ubuntu1) [universe]

Image Processing/Computer Vision Automatic Prgm. Tool

hdf5-tools (1.6.6-4ubuntu2) [universe]

Hierarchical Data Format 5 (HDF5) - Runtime tools

hmmer (2.3.2-5) [universe]

profile hidden Markov models for protein sequence analysis

hmmer-pvm (2.3.2-5) [universe]

HMMER programs with PVM (Parallel Virtual Machine) support

hodie (1.4-8) [universe]

prints the date in latin

horae (070~svn512-2) [multiverse]

interactive graphical processing and analysis of EXAFS data

ics (1.4.0-1ubuntu1) [universe]

Code_Saturne Graphical User Interface

ifeffit (2:1.2.11d-1ubuntu1) [multiverse]

An interactive program for XAFS analysis

ifrit (3.2.8-1) [universe]

a powerful tool for visualizing 3-dimensional data sets

imagej (1.43b-1ubuntu1) [universe]

Image processing program inspired by NIH Image for the Macintosh

imview (1.1.9c-4ubuntu2) [universe]

Image viewing and analysis application

indi (5:0.5-0ubuntu6) [universe]

INDI, instrument neutral distributed interface

israndom (1.0.7-3) [universe]

nonclassical randomness test using data compressors

jblas (0.1-1) [universe]

A fast linear algebra library for Java

jemboss (6.0.1-11) [universe]

graphical user interface to EMBOSS

kalign (2.04-1) [universe]

Global and progressive multiple sequence alignment

kalzium (4:4.3.2-0ubuntu1)

periodic table and chemistry tools for KDE 4

kalzium-data (4:4.3.2-0ubuntu1)

data files for Kalzium

kstars (4:4.3.2-0ubuntu1)

desktop planetarium for KDE 4

kstars-data (4:4.3.2-0ubuntu1)

data files for KStars desktop planetarium

kxterm (2006.dfsg.2-14) [universe]

CERNLIB data analysis suite - KUIP terminal emulator

last-align (58-1) [universe]

genome-scale comparison of biological sequences

libarb (0.0.20071207.1-7ubuntu1) [multiverse]

Integrated package for sequence database handling and analysis

libbio-ruby (1.1.0-1) [universe]

bioruby tools for computational molecular biology

libbio-ruby1.8 (1.1.0-1) [universe]

bioruby tools for computational molecular biology

libbiojava-java (1.7.svn.20090419-3ubuntu1) [universe]

Java API to biological data and applications

libbiojava-java-demos (1.7.svn.20090419-3ubuntu1) [universe]

Example programs for BioJava

libbiojava1.7-java (1.7.svn.20090419-3ubuntu1) [universe]

Java API to biological data and applications

libgeotiff-epsg (1.2.5-1) [multiverse]

the GeoTIFF library -- EPSG Geodetic Parameter Dataset

libghemical-data (2.98-2) [universe]

Molecular Modelling Library (data files)

libgpib-bin (3.2.11-0.2ubuntu3) [universe]

libgpib support applications and configuration

libnecpp-dev (1.3.0+cvs20090101-1ubuntu2) [universe]

development files for libnecpp

libnecpp0 (1.3.0+cvs20090101-1ubuntu2) [universe]

library to use NEC2++

libshogun3 (0.7.3-1ubuntu3) [universe]

Large Scale Machine Learning Toolbox

libshogunui1 (0.7.3-1ubuntu3) [universe]

Large Scale Machine Learning Toolbox

libworldwind-java (0.5.0-6) [multiverse]

3D Virtual Globe

loki (2.4.7.4-4) [universe]

MCMC linkage analysis on general pedigrees

loki-doc (2.4.7.4-4) [universe]

Postscript manual for loki

mafft (6.240-2) [universe]

Multiple alignment program for amino acid or nucleotide sequences

maq (0.7.1-2) [universe]

maps short fixed-length polymorphic DNA sequence reads to reference sequences

massxpert (2.0.3-1) [universe]

linear polymer mass spectrometry software

massxpert-data (2.0.3-1) [universe]

linear polymer mass spectrometry software - arch-indep data

mayavi (1.5-5) [universe]

A scientific data visualization system

mayavi2 (3.2.0-3) [universe]

A scientific visualization package for 2-D and 3-D data

meep (0.20.3-3ubuntu1) [universe]

software package for FDTD simulation

meep-mpi (0.20.3-3ubuntu1) [universe]

software package for FDTD simulation, parallel (mpich) version

melting (4.2h-3) [universe]

computing the melting temperature of nucleic acid duplex

melting-gui (4.2h-3) [universe]

Graphical user interface for melting

merkaartor (0.14+rollback0.13.2-0ubuntu1) [universe]

map editor for OpenStreetMap.org

mgltools-bhtree (1.5.4.cvs.20090603-1) [multiverse]

Bhtree library extension module

mgltools-dejavu (1.5.4.cvs.20090603-1) [multiverse]

visualization of 3D geometry using the OpenGL with Python

mgltools-geomutils (1.5.4.cvs.20090603-1) [multiverse]

Python library for geometric analyses

mgltools-mglutil (1.5.4.cvs.20090603-1) [multiverse]

Molecular Graphics Laboratory utility collection

mgltools-molkit (1.5.4.cvs.20090603-1) [multiverse]

Python classes to read and manipulate molecules

mgltools-networkeditor (1.5.4.cvs.20090603-1) [multiverse]

Python GUI library for the editing of networks

mgltools-opengltk (1.5.4.cvs.20090603-1) [multiverse]

opengltk python extension

mgltools-pmv (1.5.4.cvs.20090603-1) [multiverse]

Python-based Molecular Viewer

mgltools-pyautodock (1.5.4.cvs.20090603-1) [multiverse]

Python implementation of autodock

mgltools-pybabel (1.5.4.cvs.20090603-1) [multiverse]

molecular structure file access and interpretation

mgltools-pyglf (1.5.4.cvs.20090603-1) [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.20090603-1) [multiverse]

Simple Force Field for Python

mgltools-support (1.5.4.cvs.20090603-1) [multiverse]

Update mechanism of MGLTools

mgltools-symserv (1.5.4.cvs.20090603-1) [multiverse]

Symetry server

mgltools-utpackages (1.5.4.cvs.20090603-1) [multiverse]

UT Austin software Python extensions

mgltools-viewerframework (1.5.4.cvs.20090603-1) [multiverse]

ViewerFramework supports building visualization applications

mgltools-vision (1.5.4.cvs.20090603-1ubuntu1) [multiverse]

Python-based Visual Programming Environment

mgltools-volume (1.5.4.cvs.20090603-1) [multiverse]

Volume rendering Python package

minc-tools (2.0.17-1) [universe]

MNI medical image format tools

minisat2 (070721-6) [universe]

Fast and lightweight SAT solver

mipe (1.1-3) [universe]

Tools to store PCR-derived data

mn-fit (5.13-6ubuntu1) [universe]

interactive analysis package for fitting data and histograms

mn-fit-common (5.13-6ubuntu1) [universe]

common files for Mn_Fit

molphy (2.3b3-5) [multiverse]

Program Package for MOLecular PHYlogenetics

montecarlo-base (2006.dfsg.2-5ubuntu1) [universe]

[Physics] Common files for CERNLIB Monte Carlo libraries

montecarlo-data (2006.dfsg.2-5ubuntu1) [universe]

[Physics] data for CERNLIB Monte Carlo libraries

mopac7-bin (1.14-4) [universe]

Semi-empirical Quantum Chemistry Library (binaries)

mozilla-biofox (1.1.5-1ubuntu1) [universe]

extension of bioinformatics tools for the Firefox and Seamonkey browsers

mpb (1.4.2-13) [universe]

MIT Photonic-Bands

mpb-mpi (1.4.2-13) [universe]

MIT Photonic-Bands, parallel (mpich) version

mpqc (2.3.1-4) [universe]

The Massively Parallel Quantum Chemistry Program

mpqc-support (2.3.1-4) [universe]

Support programs and tools for MPQC

mrpt-apps (0.6.5svn807-2) [universe]

Mobile Robot Programming Toolkit - Console and GUI applications

mrpt-libs (0.6.5svn807-2) [universe]

Mobile Robot Programming Toolkit - All the libraries

mssstest (3.0-1) [multiverse]

Normalisation of disease scores for patients with Multiple Sclerosis

mummer (3.20-3) [universe]

Efficient sequence alignment of full genomes

muscle (3.70+fix1-2) [universe]

Multiple alignment program of protein sequences

music-bin (1.0.4-1ubuntu2) [universe]

Multi-Simulation Coordinator for MPI -- Utilities

mustang (3.0-1ubuntu1) [universe]

multiple structural alignment of proteins

mustang-testdata (3.0-1ubuntu1) [universe]

multiple structural alignment of proteins, test data

ncbi-epcr (2.3.12-1) [universe]

Tool to test a DNA sequence for the presence of sequence tagged sites

ncbi-rrna-data (6.1.20090301-1) [universe]

large rRNA BLAST databases distributed with the NCBI toolkit

ncbi-tools-bin (6.1.20090301-1) [universe]

NCBI libraries for biology applications (text-based utilities)

ncbi-tools-x11 (6.1.20090301-1) [universe]

NCBI libraries for biology applications (X-based utilities)

necpp (1.3.0+cvs20090101-1ubuntu2) [universe]

NEC2 Evolution Antenna Modelling System

netcdf-bin (1:3.6.2-3.1ubuntu2) [universe]

Programs for reading and writing NetCDF files

njplot (2.3-2) [universe]

A phylogenetic tree drawing program

objcryst-fox (1.8.2~r1158-1) [universe]

Free Objects for Xtallography

ogdi-bin (3.2.0~beta2-4) [universe]

Open Geographic Datastore Interface Library -- utilities

openbabel (2.2.3-1) [universe]

Chemical toolbox utilities

opencascade-draw (6.3.0.dfsg.1-3) [universe]

OpenCASCADE CAE platform shared library

opencascade-wok (6.3.0.dfsg.1-3) [universe]

OpenCASCADE CAE platform shared library

openjump (1.0-3) [multiverse]

Open Java Unified Mapping Platform JUMP

openmx (3.2.4.dfsg-3) [universe]

Package for nano-scale material simulations

openturns-examples (0.13.1-1ubuntu1) [universe]

examples of OpenTURNS functionalities

openturns-validation (0.13.1-1ubuntu1) [universe]

validation files for OpenTURNS

openturns-wrapper (0.13.1-1ubuntu1) [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 (20080225-2) [universe]

OriginLab Origin project files to data files converter

origami (0.7-0ubuntu1) [universe]

command-line management tool for Folding @ Home clients

paje.app (1.97+cvs20080110-2build2) [universe]

generic visualization tool (Gantt chart and more)

paraview (3.4.0-4ubuntu4) [universe]

Parallel Visualization Application

paw (1:2.14.04.dfsg.2-6) [universe]

Physics Analysis Workstation - a graphical analysis program

paw++ (1:2.14.04.dfsg.2-6) [universe]

Physics Analysis Workstation (Lesstif-enhanced version)

paw-common (1:2.14.04.dfsg.2-6) [universe]

Physics Analysis Workstation (common files)

paw-demos (1:2.14.04.dfsg.2-6) [universe]

Physics Analysis Workstation examples and tests

perl-ifeffit (2:1.2.11d-1ubuntu1) [multiverse]

Perl extensions for IFEFFIT

perlprimer (1.1.17-1) [universe]

Graphical design of primers for PCR

perlprimer-doc (1.1.17-1) [universe]

Tutorial to perlprimer

php5-gpib (3.2.11-0.2ubuntu3) [universe]

libgpib PHP5 bindings

phylip (1:3.68-2) [multiverse]

[Biology] A package of programs for inferring phylogenies

phylip-doc (1:3.68-2) [multiverse]

[Biology] A package of programs for inferring phylogenies

phyml (1:200900706-2) [universe]

Phylogenetic estimation using Maximum Likelihood

picosat (846-1) [universe]

SAT solver with proof and core support

planets (0.1.13-9) [universe]

Gravitation simulation of planetary bodies

plink (1.06-3) [universe]

whole-genome association analysis toolset

poa (2.0+20060928-2) [universe]

Partial Order Alignment for multiple sequence alignment

praat (5.1.7-1) [universe]

program for speech analysis and synthesis

primer3 (1.1.4-1) [universe]

Tool to design flanking oligo nucleotides for DNA amplification

probcons (1.12-4) [universe]

PROBabilistic CONSistency-based multiple sequence alignment

probcons-extra (1.12-4) [universe]

Extra programs from the probcons package

proda (1.0-7) [universe]

multiple alignment of protein sequences

proj (4.6.1-5) [universe]

Cartographic projection filter and library (transitional package)

proj-bin (4.6.1-5) [universe]

Cartographic projection library (tools)

psi3 (3.4.0-1ubuntu1) [universe]

Quantum Chemical Program Suite

pymol (1.2r1-2ubuntu1) [universe]

Molecular Graphics System

python-ifeffit (2:1.2.11d-1ubuntu1) [multiverse]

Python GUI interface and extensions for IFEFFIT

python-necpp (1.3.0+cvs20090101-1ubuntu2) [universe]

Python module for using NEC2++

python-nifti (0.20090303.1-1) [universe]

Python interface to the NIfTI I/O libraries

python-pyepl (1.1.0-1) [universe]

module for coding psychology experiments in Python

python-pyepl-common (1.1.0-1) [universe]

module for coding psychology experiments in Python

python-pyode (1.2.0-4+cvs20090320) [universe]

Python bindings for The Open Dynamics Engine

qfits-tools (6.2.0-1) [universe]

FITS manipulation tools

qmc (0.94-3build1) [universe]

Quine McClusky Simplification Tool

qsearch-tools (1.0.8-1) [universe]

qsearch machine-learning command-line utilities

qtdmm (0.8.12-2.1ubuntu1) [universe]

GUI for digital multimeter

r-cran-colorspace (1.0.1-1) [universe]

GNU R Color Space Manipulation

r-cran-epibasix (1.1-1) [universe]

GNU R Elementary Epidemiological Functions

r-cran-genetics (1.3.4-0.1) [universe]

GNU R package for population genetics

r-cran-haplo.stats (1.3.8-2) [universe]

GNU R package for haplotype analysis

r-cran-maptools (0.7.20-1) [multiverse]

GNU R Tools for reading and handling spatial objects

r-cran-msm (0.8.2-1) [universe]

GNU R Multi-state Markov and hidden Markov models in continuous time

r-cran-qvalue (1.1-2) [universe]

GNU R package for Q-value estimation for FDR control

r-cran-randomforest (4.5-30-1) [universe]

GNU R package implementing the random forest classificator

r-cran-sp (0.9.36-1) [universe]

GNU R classes and methods for spatial data

r-cran-spc (0.21-1) [universe]

GNU R Statistical Process Control

r-cran-surveillance (1.0.3-2) [multiverse]

development and the evaluation of epidemiological outbreak detection algorithms

r-cran-vcd (1.2.4-1) [universe]

GNU R Visualizing Categorical Data

r-cran-xtable (1.5.5-1) [universe]

GNU R coerce data to LaTeX and HTML tables

r-other-bio3d (1.0-5-1.1) [universe]

GNU R package for biological structure analysis

rasmol (2.7.4.2-5) [universe]

Visualize biological macromolecules

rasmol-doc (2.7.4.2-5) [universe]

Documentation for rasmol

raster3d (2.7s-1ubuntu2) [multiverse]

tools for generating images of proteins or other molecules

readseq (1-7) [universe]

[Biology] Conversion between sequence formats

rnahybrid (2.1-2) [universe]

Fast and effective prediction of microRNA/target duplexes

robot-player (2.0.4-3.3ubuntu3) [universe]

Networked server for robots and sensors

robot-player-dev (2.0.4-3.3ubuntu3) [universe]

Networked server for robots and sensors - development package

robot-player-doc (2.0.4-3.3ubuntu3) [universe]

Networked server for robots and sensors (documentation)

root-plugin-asimage (5.18.00-2.3ubuntu2) [universe]

AfterImage plugin for ROOT

root-plugin-fftw3 (5.18.00-2.3ubuntu2) [universe]

FFTw plugin for ROOT

root-plugin-fumili (5.18.00-2.3ubuntu2) [universe]

Fumili plugin for ROOT

root-plugin-gl (5.18.00-2.3ubuntu2) [universe]

GL plugin for ROOT

root-plugin-hbook (5.18.00-2.3ubuntu2) [universe]

Hbook plugin for ROOT

root-plugin-krb5 (5.18.00-2.3ubuntu2) [universe]

Kerberos (version 5) plugin for ROOT

root-plugin-minuit2 (5.18.00-2.3ubuntu2) [universe]

Minuit version 2 plugin for ROOT

root-plugin-mysql (5.18.00-2.3ubuntu2) [universe]

MySQL client plugin for ROOT

root-plugin-netx (5.18.00-2.3ubuntu2) [universe]

NetX plugin for ROOT

root-plugin-odbc (5.18.00-2.3ubuntu2) [universe]

ODBC plugin for ROOT

root-plugin-peac (5.18.00-2.3ubuntu2) [universe]

PEAC plugin for ROOT - run-time libraries

root-plugin-pgsql (5.18.00-2.3ubuntu2) [universe]

PostgreSQL client plugin for ROOT

root-plugin-proof (5.18.00-2.3ubuntu2) [universe]

PROOF plugin for ROOT

root-plugin-qt (5.18.00-2.3ubuntu2) [universe]

Qt plugin for ROOT

root-plugin-sql (5.18.00-2.3ubuntu2) [universe]

SQL plugin for ROOT

root-plugin-xml (5.18.00-2.3ubuntu2) [universe]

XML reader plugin for ROOT

root-plugin-xproof (5.18.00-2.3ubuntu2) [universe]

XPROOF plugin for ROOT

root-system (5.18.00-2.3ubuntu2) [universe]

Meta package to install all ROOT packages

root-system-bin (5.18.00-2.3ubuntu2) [universe]

Numerical data analysis framework - general applications

root-system-common (5.18.00-2.3ubuntu2) [universe]

Common files for ROOT

root-system-proofd (5.18.00-2.3ubuntu2) [universe]

Parallel ROOt Facility - distributed, parallel computing

root-system-rootd (5.18.00-2.3ubuntu2) [universe]

ROOT remote file server

root-system-xrootd (5.18.00-2.3ubuntu2) [universe]

Extented ROOT file server

saods9 (4.0b7-2) [universe]

image display tool for astronomy

sat4j (2.0.5-2) [universe]

Efficient library of SAT solvers in Java

seaview (1:4.0-1) [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 (0.7.3-1ubuntu3) [universe]

Large Scale Machine Learning Toolbox

shogun-dbg (0.7.3-1ubuntu3) [universe]

Large Scale Machine Learning Toolbox

shogun-elwms (0.7.3-1ubuntu3) [universe]

Large Scale Machine Learning Toolbox

shogun-octave (0.7.3-1ubuntu3) [universe]

Large Scale Machine Learning Toolbox

shogun-octave-modular (0.7.3-1ubuntu3) [universe]

Large Scale Machine Learning Toolbox

shogun-python (0.7.3-1ubuntu3) [universe]

Large Scale Machine Learning Toolbox

shogun-python-modular (0.7.3-1ubuntu3) [universe]

Large Scale Machine Learning Toolbox

shogun-r (0.7.3-1ubuntu3) [universe]

Large Scale Machine Learning Toolbox

sibsim4 (0.17-1) [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 (1:0.64-2ubuntu1) [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 (2.1-4) [universe]

An automated theorem prover for first-order logic with equality

spatialite-bin (2.3.0-1) [universe]

Geospatial extension for SQLite - tools

ssake (3.4-1) [universe]

genomics application for assembling millions of very short DNA sequences

ssake-examples (3.4-1) [universe]

example data for SSAKE, a genomic assembler of short reads

stage (2.0.3-2ubuntu1) [universe]

Robot simulation for Player

stardata-common (0.6) [universe]

Common framework to manage astronomy packages

starplot (0.95.5-2) [universe]

3-dimensional perspective star map viewer

stellarium (0.10.2-1) [universe]

real-time photo-realistic sky generator

stellarium-data (0.10.2-1) [universe]

datafiles for Stellarium, a real-time photo-realistic sky generator

survex (1.0.39.1-2.1) [universe]

cave surveying and mapping software

survex-aven (1.0.39.1-2.1) [universe]

sophisticated cave survey viewer for Survex

survex-svxedit (1.0.39.1-2.1) [universe]

survey data editor for Survex

t-coffee (5.72-1) [universe]

Multiple Sequence Alignment

t-coffee-doc (5.72-1) [universe]

PDF and HTML accompaning documents to T-Coffee

t-coffee-examples (5.72-1) [universe]

annotated examples for the use of T-Coffee

tcd-utils (20061127-2) [universe]

convert Tide Constituent Database (TCD) files

tessa (0.3.1-4ubuntu3) [universe]

simulation of 3D optical systems with the FDTD method

tessa-mpi (0.3.1-4ubuntu3) [universe]

simulation of 3D optical systems using FDTD on LAM-MPI clusters

therion (5.2.8-1build1) [universe]

Cave surveying - 2D and 3D drawing software

therion-doc (5.2.8-1build1) [universe]

Documentation for Therion Cave surveying software

therion-viewer (5.2.8-1build1) [universe]

Cave surveying - 3D viewer for therion models

theseus (1.3.9-1ubuntu1) [universe]

superimpose macromolecules using maximum likelihood

tigr-glimmer (3.02-1) [universe]

Gene detection in archea and bacteria

transcalc (0.14-4) [universe]

microwave and RF transmission line calculator

tree-ppuzzle (5.2-5) [universe]

Parallelized reconstruction of phylogenetic trees by maximum likelihood

tree-puzzle (5.2-5) [universe]

Reconstruction of phylogenetic trees by maximum likelihood

tree-puzzle-doc (5.2-5) [universe]

Reconstruction of phylogenetic trees by maximum likelihood

treetool (2.0.2a-5) [multiverse]

interactive tool for displaying phylogenetic trees

treeviewx (0.5.1-5) [universe]

Displays and prints phylogenetic trees

triangle-bin (1.6-2) [multiverse]

High-quality 2-D mesh generator binary programs

ugene (1.5.1+repack-0ubuntu1) [universe]

integrated bioinformatics toolkit

ugene-data (1.5.1+repack-0ubuntu1) [universe]

required data for UGENE - integrated bioinformatics toolkit

units-filter (2.9-8) [universe]

Parser for expressions concerning physical values

v-sim (3.4.4-1) [universe]

Visualize atomic structures

v-sim-common (3.4.4-1) [universe]

Visualize atomic structures (support files)

v-sim-plugins (3.4.4-1) [universe]

Plugins for V_Sim (a 3D visualization package)

velvet (0.7.34-1) [universe]

Nucleic acid sequence assembler for very short reads

velvet-example (0.7.34-1) [universe]

Example data for the Velvet sequence assembler

viewmol (2.4.1-15) [universe]

A graphical front end for computational chemistry programs.

weka (3.6.0-1) [multiverse]

Machine learning algorithms for data mining tasks

wise (2.4.1-7) [universe]

comparison of biopolymers, commonly DNA and protein sequences

worldwind (0.5.0-6) [multiverse]

3D Virtual Globe

xbs (0-7.3) [universe]

3-d models and movies of molecules

xdrawchem (1.9.9-4ubuntu3) [universe]

Chemical structures and reactions editor

xmakemol (5.16-3ubuntu1) [universe]

A program for visualizing atomic and molecular systems

xmds (1.6.6-2) [universe]

eXtensible Multi-Dimensional Simulator

xorsa (0.7.0-14) [universe]

tool for Celestial Mechanics investigations

xplot (1.19-7.2) [universe]

A simple x-y column data plotter for X.

xplot-xplot.org (0.90.7.1-1) [universe]

fast tool to graph and visualize lots of data

xtide (2.9.5-3ubuntu2) [universe]

provides tide and current predictions

xtide-coastline (20020202-1) [universe]

coastline data for xtide

xtide-data (20070318-3) [universe]

Harmonics data for xtide

xtide-data-nonfree (20070318-2) [multiverse]

Harmonics data for xtide (Canada, Netherlands, Germany and UK)

ygraph (0.16~cvs20090218-1ubuntu1) [universe]

plot and animate data sets

z88 (13.0.0+dfsg2-1) [universe]

Finite Element Analysis Program - runtime

zimpl (2.09.ds1-1) [universe]

mathematical modeling language for optimization problems