Linux biology software
Last updated
pymol
Free and Open-Source molecular modeling system
migrate
A program to estimate population sizes and migration rates
clustalw
CLUSTAL W Multiple Sequence Alignment Program
L-Breeder
Allows you to display and breed L-system forms
act
A DNA sequence comparison viewer based on Artemis
ariadne
Programs to compare protein sequences and profiles
artemis
A DNA sequence viewer and annotation tool
avida
Avida is an auto-adaptive genetic system designed for ALife research
babel
Converts among various molecular file formats
biojava
Open-source java tools for processing biological data
All linux biology software (ordered by name)
L-Breeder
Allows you to display and breed L-system forms
act
A DNA sequence comparison viewer based on Artemis
ariadne
Programs to compare protein sequences and profiles
artemis
A DNA sequence viewer and annotation tool
avida
Avida is an auto-adaptive genetic system designed for ALife research
babel
Converts among various molecular file formats
biojava
Open-source java tools for processing biological data
chemeq
Outputs LaTeX code for chemical reaction
clustalw
CLUSTAL W Multiple Sequence Alignment Program
mrbayes
Bayesian inference of phylogeny
coalesce
A program to fit population models
crimap
Creation of multilocus linkage maps
deft
Density functional molecular orbital calculation
distribfold
distributedfolding.org distributed protein folding project
dna-qc
A quality control algorithm for DNA sequencing projects
emboss
A collection of open source tools for genetic sequence analysis
finchtv
A chromatogram trace viewer
fasta
A collection of programs for searching DNA and protein databases
fasta3
A collection of programs for searching DNA and protein databases
fastdnaml
Faster DNAML, makes phylogenetic trees using maximum likelihood
flip
Flip is used to find/translate orfs
fluctuate
A program to fit population models
garlic
Molecular viewer, editor and visualization program
genpak
A set of small utilities to manipulate DNA sequences
gff2ps
Converts gff-formated genomic data-sets to PostScript
gperiodic
Displays a periodic table of the elements
grappa
Genome Rearrangements Analysis and Phylogeny Software
hmmer
Profile hidden Markov models for biological sequence analysis
kinemage
A molecular visualization program with special functions
lamarc
A package of programs for computing population parameters
linux-foldingathome
Distributed client for Protein Folding
libgenome
Toolkit for developing bioinformatic related software in C++
lsysexp
A GTK based program for viewing and creating L-system fractals
migrate
A program to estimate population sizes and migration rates
molden
Display molecular orbitals and electron densities in 2D and 3D
mopac
Semi-empirical (MNDO, etc.) molecular orbital calculation
nab
A language for macromolecules
ncbi-toolkit
NCBI development toolkit, including BLAST 2 and GenBank/Entrez support
nclever
NClever is a character-based version of NCBI's Entrez program
ortep3
The Oak Ridge Thermal Ellipsoid Plot Program for Crystal Structure
p5-AcePerl
Perl5 interface to the ACEDB genome database system
p5-bioperl
A collection of Perl modules for bioinformatics
paml
Phylogenetic Analysis by Maximum Likelihood (PAML)
phylip
A Phylogeny Inference Package
platon
Tool for viewing molecular/crystallographic structures
povchem
Simple yet powerful tool to generate POV from a PDB file
primer3
Primer3 helps to choose primers for PCR reactions
psi88
Plotting wavefunctions (molecular orbitals) in 3D
py-biopython
A collection of Python modules for bioinformatics
pymol
Free and Open-Source molecular modeling system
rasmol
Fast Molecular Visualization Program
recombine
A program to fit population models across sites
ruby-bio
Integrated environment for Bioinformatics written in Ruby
seaview
Multiple DNA/protein sequence alignment editor
seqio
A set of C functions which can read/write biological sequence files
sim4
An algorithm for aligning expressed DNA with genomic sequences
spdbv
Deep View Swiss-PdbViewer is a Protein viewer and analysis tool
tRNAscan-SE
An improved tool for transfer RNA detection
t_coffee
A multiple DNA or protein sequence alignment package
tinker
A general purpose molecular modelling package
treepuzzle
Maximum likelihood phylogeny reconstruction using quartets
treeviewx
A phylogenetic tree viewer
wise
Intelligent algorithms for DNA searches
xdrawchem
Chemical drawing program
xmolwt
Calculate formula weight and percent of each element for a given formula
blast
WU BLAST, a software package for sequence similarity searches
embassy
A collection of contributed EMBOSS applications
p5-Bio-ASN1-EntrezGene
Regular expression-based Perl Parser for NCBI Entrez Gene
p5-Bio-Das
Client-side library for Distributed Genome Annotation System
adun
Molecular Simulator for GNUstep
belvu
A viewer for multiple sequence alignments
biococoa
Bioinformatics framework
blat
A fast tool for local sequence similarity searches
boinc-simap
Similarity Matrix of Proteins project for BOINC
dotter
A viewer for multiple sequence alignments
gmap
A Genomic Mapping and Alignment Program for mRNA and EST Sequences
jalview
A viewer and editor for multiple sequence alignments
lagan
Efficient tools for large-scale multiple alignments of genomic DNA
mafft
Multiple sequence alignments based on fast Fourier transform
p5-Bio-Phylo
Phylogenetic analysis using perl
p5-bioperl-devel
A collection of Perl modules for bioinformatics (developer release)
p5-bioperl-run
Wrapper modules for common bioinformatics tools
p5-bioperl-run-devel
Wrapper modules for common bioinformatics tools (developer release)
protomol
OO, component based, framework for molecular dynamics (MD) simulations
mummer
A modular system for rapid whole genome alignment
