Software Packages in "gutsy", Subsection science

achilles (2-8) [universe]

An artificial life and evolution simulator

adun.app (0.6-3) [universe]

Molecular Simulator for GNUstep

amap-align (2.0-2) [universe]

Protein multiple alignment by sequence annealing

apbs (0.4.0-2) [universe]

Adaptive Poisson Boltzmann Solver

astronomical-almanac (5.6-2) [universe]

astronomical almanac - calculate planet and star positions

avce00 (2.0.0-1) [universe]

Tools for conversion of ESRI Arcinfo (binary) Vector Coverage in E00 format.

avida-base (2.0b7-4ubuntu2) [universe]

Auto-adaptive genetic system for Artificial Life research

avida-qt-viewer (2.0b7-4ubuntu2) [universe]

qt viewer for avida

avida-viewer (2.0b7-4ubuntu2) [universe]

ncurses viewer for avida

biococoa.app (1.6.0-3build1) [universe]

Sequence file format conversion for GNUstep

biomode (1.002-7) [universe]

[Biology] An Emacs mode to edit genetic data

bioperl (1.4-1) [universe]

Perl tools for computational molecular biology

biosquid (1.9g+cvs20050121-1) [universe]

utilities for biological sequence analysis

blast2 (1:2.2.15.20061015-2ubuntu1) [universe]

Basic Local Alignment Search Tool

blinken (4:3.5.8-0ubuntu1) [universe]

KDE version of the Simon Says electronic memory game

bodr (6-1) [universe]

The Blue Obelisk Data Repository

boinc-app-seti (5.13+cvs20060510-2) [universe]

SETI@home application for the BOINC client

boxshade (3.3.1-1) [universe]

Pretty-printing of multiple sequence alignments

cassbeam (1.0-7) [universe]

A program for Cassegrain antenna modelling

celestia-common (1.4.1-0ubuntu3) [universe]

Datafiles for Celestia, a real-time visual space simulation

celestia-glut (1.4.1-0ubuntu3) [universe]

A real-time visual space simulation (GLUT frontend)

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

almost complete set of Debian Cernlib packages

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

Cernlib main libraries and programs

cernlib-core-dev (2006.dfsg.2-2ubuntu1) [universe]

Cernlib development headers, tools, and static libraries

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

miscellaneous Cernlib programs unlikely to be used by many

cernlib-montecarlo (2006.dfsg.2-1) [universe]

Cernlib Monte Carlo libraries

chemtool (1.6.10-1build1) [universe]

Chemical structures drawing program

clustalw (1.83-1.2) [multiverse]

[Biology] Global multiple nucleotide or peptide sequence alignment

clustalw-mpi (0.13-3) [multiverse]

[Biology] MPI-distributed global sequence alignment with ClustalW

clustalx (1.83-1.2) [multiverse]

[Biology] GUI for clustalw

complearn-gui (0.9.7-1) [universe]

A 3D GUI toy drag and drop interface to complearn

complearn-mpi (0.9.6-1) [universe]

A MPI-based parallel quartet tree search system

complearn-tools (0.9.9-1) [universe]

complearn machine-learning command-line utilities

ctsim (4.5.3-2ubuntu1) [universe]

Computed tomography simulator

ctsim-help (4.5.3-2ubuntu1) [universe]

Online help file for CTSim

dcmtk (3.5.4-2) [universe]

The OFFIS DICOM toolkit command line utilities

dialign (2.2.1-1) [universe]

Segment-based multiple sequence alignment

dicomnifti (2.27-1) [universe]

converts DICOM files into the NIfTI format

drawmap (2.5-3) [universe]

draws customized maps, using raw USGS data files

dx (1:4.4.0-3) [universe]

OpenDX (IBM Visualization Data Explorer) - main package

dxsamples (4.2.0-1) [universe]

Sample programs for the OpenDX Data Explorer

e00compr (1.0.0-6) [universe]

a program to read/write Arc/Info compressed E00 files

easychem (0.6-3) [universe]

Draw high-quality molecules and 2D chemical formulas

engauge-digitizer (4.1-1) [universe]

interactively extracts numbers from bitmap graphs or maps

ent (1.0-6) [universe]

pseudorandom number sequence test program

epigrass (1.4.7-1) [universe]

scientific tool for simulations and scenario analysis in network epidemiology

fastdnaml (1.2.2-6) [universe]

[Biology] Tool for construction of phylogenetic trees of DNA sequences

fastlink (4.1P-fix92-1) [universe]

[Biology] A faster version of pedigree programs of Linkage

fastlink-doc (4.1P-fix92-1) [universe]

[Biology] Some papers about fastlink

fityk (0.7.8-1) [universe]

general-purpose nonlinear curve fitting and data analysis

fv (3.0-16ubuntu1) [universe]

a tool for viewing and editing FITS format files

g3data (1:1.5.1-1ubuntu2) [universe]

extract data from scanned graphs

garlic (1.5-2) [universe]

A visualization program for biomolecules

gausssum (2.1.0-1) [universe]

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

gchempaint (0.6.6-3build3) [universe]

2D chemical structures editor for the GNOME2 desktop

gcu-bin (0.6.3-4ubuntu2) [universe]

GNOME chemistry utils (applications)

gcx (0.9.8-2ubuntu2) [universe]

astronomical image processing and photometry gtk+ application

gdal-bin (1.4.1-6build1) [universe]

Geospatial Data Abstraction Library - Utility programs

gdis (0.89-2ubuntu1) [universe]

molecular display

gdpc (2.2.4-2) [universe]

visualiser of molecular dynamic simulations

gdpc-examples (2.2.4-2) [universe]

example files for the gdpc program

geant321 (1:3.21.14.dfsg-5) [universe]

[Physics] Particle detector description and simulation tool

geant321-data (1:3.21.14.dfsg-5) [universe]

[Physics] Data for Geant 3.21 detector simulator

genesis (2.2.1-12) [universe]

general-purpose neural simulator

gff2aplot (2.0-3) [universe]

pair-wise alignment-plots for genomic sequences in PostScript

gff2ps (0.98d-2) [universe]

produces PostScript graphical output from GFF-files

gmt (4.1.4-0ubuntu1) [universe]

Generic Mapping Tools

gmt-doc-pdf (4.1.4-0ubuntu1) [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 (4.1.4-0ubuntu1) [universe]

Tutorial for GMT, the Generic Mapping Tools (PDF)

gperiodic (2.0.9-1) [universe]

periodic table application

gpib-modules-source (3.2.06-3.2ubuntu1) [universe]

kernel modules for various GPIB boards

gpiv (0.3.1-2) [universe]

Graphic User Interface program for Particle Image Velocimetry

gpivtools (0.3.3-1) [universe]

Command line programs for Particle Image Velocimetry

gpx2shp (0.69-2) [universe]

convert GPS or GPX file to ESRI Shape file

grass (6.2.2-1ubuntu1) [universe]

Geographic Resources Analysis Support System

grass-doc (6.2.2-1ubuntu1) [universe]

Geographic Resources Analysis Support System documentation

gri (2.12.15-5) [universe]

a language for scientific illustration

gri-el (2.12.15-5) [universe]

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

gromacs (3.3.1-5) [universe]

Molecular dynamics simulator, with building and analysis tools

gromacs-lam (3.3.1-5) [universe]

Molecular dynamics sim, binaries for LAM-MPI parallelization

gromacs-mpich (3.3.1-5) [universe]

Molecular dynamics sim, binaries for MPICH parallelization

h5utils (1.10-7) [universe]

HDF5 files visualization tools

harminv (1.3.1-1) [universe]

extraction of complex frequencies and amplitudes from time series

hdf5-tools (1.6.5-5) [universe]

Hierarchical Data Format 5 (HDF5) - Runtime tools

hmmer (2.3.2-2) [universe]

profile hidden Markov models for protein sequence analysis

hmmer-pvm (2.3.2-2) [universe]

HMMER programs with PVM (Parallel Virtual Machine) support

hodie (1.4-5) [universe]

prints the date in latin

horae (064-1) [multiverse]

interactive graphical processing and analysis of EXAFS data

ifeffit (1:1.3.0-4) [multiverse]

An interactive program for XAFS analysis

ifrit (3.1.5-1) [universe]

a powerful tool for visualizing 3-dimensional data sets

imview (1.1.8-7) [universe]

Image viewing and analysis application

indi (4:3.5.8-0ubuntu1)

Instrument Neutral Distributed Interface for astronomical devices

kalign (2.03-1) [universe]

Global and progressive multiple sequence alignment

kalzium (4:3.5.8-0ubuntu1)

chemistry teaching tool for KDE

kalzium-data (4:3.5.8-0ubuntu1)

data files for Kalzium

kstars (4:3.5.8-0ubuntu1)

desktop planetarium for KDE

kstars-data (4:3.5.8-0ubuntu1)

data files for KStars desktop planetarium

kxterm (2006.dfsg.2-2ubuntu1) [universe]

Cernlib's KUIP terminal emulator

leksbot (1.2-9) [universe]

An explanatory dictionary of botanic and biological terms

libbio-ruby (1.0.0-1) [universe]

bioruby tools for computational molecular biology

libbio-ruby1.8 (1.0.0-1) [universe]

bioruby tools for computational molecular biology

libbtk-core-dev (0.8.1-0ubuntu1) [universe]

Biomolecule Toolkit C++ library

libghemical-data (2.10-1) [universe]

Molecular Modelling Library (Data Files)

libgpib-bin (3.2.06-3.2ubuntu1) [universe]

libgpib support applications and configuration

libnecpp-dev (1.2.4+cvs20060601-1) [universe]

development files for libnecpp

libnecpp0 (1.2.4+cvs20060601-1) [universe]

library to use NEC2++

libqgis1 (0.8.0-5ubuntu2 [amd64, i386], 0.8.0-3ubuntu3 [powerpc]) [universe]

QGIS Geographic Information System - shared library

libqgis1-dev (0.8.0-5ubuntu2 [amd64, i386], 0.8.0-3ubuntu3 [powerpc]) [universe]

QGIS Geographic Information System - development files

loki (2.4.7.4-1) [universe]

[Biology] MCMC linkage analysis on general pedigrees

loki-doc (2.4.7.4-1) [universe]

[Biology] Postscript manual for loki

mayavi (1.5-4) [universe]

A scientific data visualization system

meep (0.10-2) [universe]

MIT Electromagnetic Equation Propagation

meep-mpi (0.10-2) [universe]

MIT Electromagnetic Equation Propagation, parallel (mpich) version

melting (4.2g-1) [universe]

computing the melting temperature of nucleic acid duplex

melting-gui (4.2g-1) [universe]

Graphical user interface for melting

minc-tools (1.5-1) [universe]

MNI medical image format tools

mipe (1.1-1) [universe]

[Biology] Tools to store PCR-derived data

mn-fit (5.13-4) [universe]

interactive analysis package for fitting data and histograms

mn-fit-common (5.13-4) [universe]

common files for Mn_Fit

molphy (2.3b3-3) [multiverse]

[Biology] Program Package for MOLecular PHYlogenetics

montecarlo-base (2006.dfsg.2-1) [universe]

[Physics] Common files for Cernlib Monte Carlo libraries

mozilla-biofox (1.1.4-2) [universe]

extension of bioinformatics tools to Mozilla and Iceweasel browsers

mpb (1.4.2-11) [universe]

MIT Photonic-Bands

mpb-mpi (1.4.2-11) [universe]

MIT Photonic-Bands, parallel (mpich) version

mpqc (2.3.1-1ubuntu2) [universe]

The Massively Parallel Quantum Chemistry Program

mpqc-support (2.3.1-1ubuntu2) [universe]

Support programs and tools for MPQC

mssstest (2.0-2) [multiverse]

Normalisation of disease scores for patients with Multiple Sclerosis

mummer (3.19-1) [universe]

[Biology] Efficient sequence alignment of full genomes

muscle (3.60-1) [universe]

[Biology] multiple alignment program of protein sequences

muscle-doc (3.60-1) [universe]

[Biology] documentation to sequence alignment program

mustang (3.0-0ubuntu1) [universe]

Multiple structural alignment of proteins

ncbi-epcr (1.2.0-3build1) [universe]

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

ncbi-epcr-data (1.2.0-3build1) [universe]

[Biology] NCBI public STS data

ncbi-tools-bin (6.1.20061015-2ubuntu1) [universe]

NCBI libraries for biology applications (text-based utilities)

ncbi-tools-x11 (6.1.20061015-2ubuntu1) [universe]

NCBI libraries for biology applications (X-based utilities)

necpp (1.2.4+cvs20060601-1) [universe]

NEC2 Evolution Antenna Modelling System

netcdf-bin (3.6.1-0.1build1) [universe]

Programs for reading and writing NetCDF files

njplot (0.20060606-3) [universe]

[Biology] A tree drawing program

ogdi-bin (3.2.0~beta1-3ubuntu1) [universe]

Open Geographic Datastore Interface Library -- utilities

openbabel (2.1.1-0ubuntu2) [universe]

Convert and manipulate chemical data files

openuniverse (1.0beta3.1-6) [universe]

3D Universe Simulator

openuniverse-common (1.0beta3.1-6) [universe]

3D Universe Simulator data files

opj2dat (20070115-1) [universe]

OriginLab Origin project files to data files converter

paje.app (1.4.0-5) [universe]

generic visualization tool (Gantt chart and more)

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

Physics Analysis Workstation - a graphical analysis program

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

Physics Analysis Workstation (Lesstif-enhanced version)

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

Physics Analysis Workstation (common files)

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

Physics Analysis Workstation examples and tests

perl-ifeffit (1:1.3.0-4) [multiverse]

Perl extensions for IFEFFIT

perlprimer (1.1.14-1) [universe]

[Biology] graphical design of primers for PCR

perlprimer-doc (1.1.14-1) [universe]

[Biology] tutorial to perlprimer

phylip (1:3.66-1) [multiverse]

[Biology] A package of programs for inferring phylogenies

phylip-doc (1:3.66-1) [multiverse]

[Biology] A package of programs for inferring phylogenies

planets (0.1.13-1) [universe]

Gravitation simulation of planetary bodies

poa (2.0+20060928-1) [universe]

Partial Order Alignment for multiple sequence alignment

polyxmass (0.9.2) [universe]

Mass spectrometry software framework

polyxmass-bin (0.9.7-1ubuntu2) [universe]

Mass spectrometry framework - GUI program

polyxmass-bin-common (0.9.7-1ubuntu2) [universe]

Mass spectrometry framework - GUI program arch-indep data

polyxmass-common (0.8.7-2) [universe]

Mass spectrometry framework - essential polymer chemistry data

polyxmass-data (0.8.7-1) [universe]

Mass spectrometry framework - supplementary chemical data

praat (4.6.12-1) [universe]

program for speech analysis and synthesis

primer3 (1.1.1-1) [universe]

Tool to design flanking oligo nucleotides for DNA amplification

probcons (1.12-3) [universe]

PROBabilistic CONSistency-based multiple sequence alignment

probcons-extra (1.12-3) [universe]

Extra programs from the probcons package

proda (1.0-2) [universe]

multiple alignment of protein sequences

proj (4.5.0-2) [universe]

Cartographic projection filter and library

psi3 (3.2.3-1ubuntu1) [universe]

Quantum Chemical Program Suite

pymol (1.0-1) [universe]

An OpenGL Molecular Graphics System written in Python

python-ifeffit (1:1.3.0-4) [multiverse]

Python GUI interface and extensions for IFEFFIT

python-necpp (1.2.4+cvs20060601-1) [universe]

Python module for using NEC2++

python-nifti (0.20070425.1-1) [universe]

Python interface to the NIfTI I/O libraries

python-pyepl (1.0.29-1build1) [universe]

library for coding psychology experiments in Python

python-pyepl-common (1.0.29-1build1) [universe]

library for coding psychology experiments in Python

python-pyode (1.2.0-1build1) [universe]

open-source Python bindings for The Open Dynamics Engine

qfits-tools (6.2.0-1) [universe]

FITS manipulation tools

qgis (0.8.0-5ubuntu2 [amd64, i386], 0.8.0-3ubuntu3 [powerpc]) [universe]

Geographic Information System (GIS)

qgis-plugin-grass (0.8.0-5ubuntu2 [amd64, i386], 0.8.0-3ubuntu3 [powerpc]) [universe]

Plugin for accessing GRASS data from QGIS

qmc (0.94-3build1) [universe]

Quine McClusky Simplification Tool

qtdmm (0.8.8-1ubuntu1) [universe]

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+0-1) [multiverse]

tools for generating images of proteins or other molecules

readseq (1-6) [universe]

[Biology] Conversion between sequence formats

robot-player (2.0.4-1build1) [universe]

Networked server for robots and sensors

robot-player-dev (2.0.4-1build1) [universe]

Networked server for robots and sensors - development package

robot-player-doc (2.0.4-1build1) [universe]

Networked server for robots and sensors (documentation)

saods9 (4.0b7-1.4ubuntu3) [universe]

image display tool for astronomy

seaview (20070417-1) [multiverse]

Multiple sequence alignment editor

seesat5 (0.90.10-1.1) [universe]

a satellite location program

sextractor (2.4.4-1) [universe]

source extractor for astronomical images

shogun-octave (0.3.2-3) [universe]

Large Scale Machine Learning Toolbox

shogun-python (0.3.2-3) [universe]

Large Scale Machine Learning Toolbox

shogun-python-modular (0.3.2-3) [universe]

Large Scale Machine Learning Toolbox

shogun-r (0.3.2-3) [universe]

Large Scale Machine Learning Toolbox

shogun-readline (0.3.2-3) [universe]

Large Scale Machine Learning Toolbox

sibsim4 (0.15-2) [universe]

align expressed RNA sequences on a DNA template

sigma-align (1.1.1-1) [universe]

Simple greedy multiple alignment of non-coding DNA sequences

sim4 (0.0.20030921-1) [universe]

tool for aligning cDNA and genomic DNA

sixpack (1:0.59-1ubuntu1) [multiverse]

full-featured package for XAS analysis

spass (2.1-3) [universe]

An automated theorem prover for first-order logic with equality

ssystem (1.6-17) [universe]

3D solar system simulator

stage (2.0.3-1ubuntu1) [universe]

Robot simulation for Player

stardata-common (0.4) [universe]

Common framework to manage astronomy packages

starplot (0.95.3-2ubuntu2) [universe]

3-dimensional perspective star map viewer

stars (0.12+1-3ubuntu1) [multiverse]

star map program that draws the night sky

stellarium (0.9.0-1) [universe]

real-time photo-realistic sky generator

stellarium-data (0.9.0-1) [universe]

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

survex (1.0.39.1-1) [universe]

cave surveying and mapping software

survex-aven (1.0.39.1-1) [universe]

sophisticated cave survey viewer for Survex

survex-svxedit (1.0.39.1-1) [universe]

survey data editor for Survex

t-coffee (2.50-1) [universe]

[Biology] Multiple Sequence Alignment

tessa (0.3.1-4) [universe]

simulation of 3D optical systems with the FDTD method

tessa-mpi (0.3.1-4) [universe]

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

therion (0.3.10-3) [universe]

Cave surveying - 2D and 3D drawing software

tigr-glimmer (2.13-1build2) [universe]

[Biology] Gene detection in archea and bacteria

tochnog (20010124-3.1) [universe]

A free implicit/explicit finite element analysis program

transcalc (0.14-1) [universe]

microwave and RF transmission line calculator

tree-ppuzzle (5.2-2) [universe]

[Biology] Reconstruction of phylogenetic trees by maximum likelihood

tree-puzzle (5.2-2) [universe]

[Biology] Reconstruction of phylogenetic trees by maximum likelihood

tree-puzzle-doc (5.2-2) [universe]

[Biology] Reconstruction of phylogenetic trees by maximum likelihood

treetool (2.0.2a-4) [multiverse]

[Biology] An interactive tool for displaying trees

treeviewx (0.5.1-4) [universe]

Displays and prints phylogenetic trees

units-filter (2.6-1) [universe]

Parser for expressions concerning physical values

viewmol (2.4.1-11) [universe]

A graphical front end for computational chemistry programs.

wise (2.4.0-1) [universe]

comparison of biopolymers, commonly DNA and protein sequences

xbs (0-7.3) [universe]

3-d models and movies of molecules

xdrawchem (1.9.9-4ubuntu1) [universe]

Chemical structures and reactions editor

xmakemol (5.15-2ubuntu1) [universe]

A program for visualizing atomic and molecular systems

xmds (1.6.3-1) [universe]

eXtensible Multi-Dimensional Simulator

xorsa (0.7.0-8) [universe]

tool for Celestial Mechanics investigations

xplot (1.19-7.2) [universe]

A simple x-y column data plotter for X.

xtide (2.8.2-3ubuntu2) [universe]

provides tide and current predictions

xtide-data (20040203-3) [universe]

Harmonics data for xtide

ygraph (0.15-3ubuntu1) [universe]

Visualize one-dimensional scientific data

zimpl (2.05.ds2-1) [universe]

mathematical modeling language for optimization problems