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Welcome to Linux downloads
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Linux biology software
. biojava : Open-source java tools for processing biological data
. boinc-simap : Similarity Matrix of Proteins project for BOINC
. phred : Base calling and quality value assignment on DNA sequencing
. distribfold : distributedfolding.org distributed protein folding project
. p5-Bio-Glite : An Perl Interface to G-language
. p5-Bio-Phylo : Phylogenetic analysis using perl
. genpak : A set of small utilities to manipulate DNA sequences
. pyfasta : Fast, memory-efficient, pythonic access to fasta sequence files
. treeviewx : A phylogenetic tree viewer
. libgenome : Toolkit for developing bioinformatic related software in C++
. lsysexp : A GTK based program for viewing and creating L-system fractals
. xmolwt : Calculate formula weight and percent of each element for a given formula
. python-nexus : A generic nexus file format reader for python
. velvet : Sequence assembler for very short reads
. p5-Bio-NEXUS : An object-oriented Perl API for the NEXUS file format
. adun : Molecular Simulator for GNUstep
. gff2ps : Converts gff-formated genomic data-sets to PostScript
. p5-Bio-MAGETAB : A data model and utility API for the MAGE-TAB format
. phrap : Phrap is a program for assembling shotgun DNA sequence data
. phd2fasta : A converter from output files of Phred/Consed to FASTA files
. L-Breeder : Allows you to display and breed L-system forms
. povchem : Simple yet powerful tool to generate POV from a PDB file
. psi88 : Plotting wavefunctions (molecular orbitals) in 3D
. ortep3 : The Oak Ridge Thermal Ellipsoid Plot Program for Crystal Structure
. p5-Bio-SCF : Read and Update SCF Chromatographic Sequence Files
. p5-Bio-ASN1-EntrezGene : Regular expression-based Perl Parser for NCBI Entrez Gene
. pymol : Free and Open-Source molecular modeling system
. ruby-bio : Integrated environment for Bioinformatics written in Ruby
. primer3 : Primer3 helps to choose primers for PCR reactions
. iolib : A general purpose trace file(and Experiment File) reading interface
. p5-Bio-Das : Client-side library for Distributed Genome Annotation System
. lagan : Efficient tools for large-scale multiple alignments of genomic DNA
. crux : Software toolkit for phylogenetic inference
. fastdnaml : Faster DNAML, makes phylogenetic trees using maximum likelihood
. seqio : A set of C functions which can read/write biological sequence files
. tRNAscan-SE : An improved tool for transfer RNA detection
. ariadne : Programs to compare protein sequences and profiles
. finchtv : A chromatogram trace viewer
. pycogent : A toolkit for statistical analysis of biological sequences
. fluctuate : A program to fit population models
. recombine : A program to fit population models across sites
. garlic : Molecular viewer, editor and visualization program
. p5-bioperl-devel : A collection of Perl modules for bioinformatics (developer release)
. p5-bioperl-run-devel : Wrapper modules for common bioinformatics tools (developer release)
. chemeq : Outputs LaTeX code for chemical reaction
. coalesce : A program to fit population models
. py-biopython : A collection of Python modules for bioinformatics
. babel : Converts among various molecular file formats
. biococoa : Bioinformatics framework
. p5-bioperl : A collection of Perl modules for bioinformatics
. p5-bioperl-run : Wrapper modules for common bioinformatics tools
. xdrawchem : Chemical drawing program
. p5-AcePerl : Perl5 interface to the ACEDB genome database system
. consed : A graphical tool for editing Phrap assemblies
. dna-qc : A quality control algorithm for DNA sequencing projects
. grappa : Genome Rearrangements Analysis and Phylogeny Software
. blast : WU BLAST, a software package for sequence similarity searches
. act : A DNA sequence comparison viewer based on Artemis
. gperiodic : Displays a periodic table of the elements
. clustalw : A multiple alignment program for DNA or proteins
. flip : Flip is used to find/translate orfs
. protomol : OO, component based, framework for molecular dynamics (MD) simulations
. p5-Bio-Das-Lite : Perl extension for the DAS (HTTP+XML) Protocol
. p5-Bio-Graphics : Generate GD Images of Bio::Seq Objects
. jalview : A viewer and editor for multiple sequence alignments
. njplot : Phylogenetic tree drawing program capable of interactive manipulation
. lamarc : A package of programs for computing population parameters
. deft : Density functional molecular orbital calculation
. wise : Intelligent algorithms for DNA searches
. belvu : A viewer for multiple sequence alignments
. hmmer : Profile hidden Markov models for biological sequence analysis
. crimap : Creation of multilocus linkage maps
. rasmol : Fast Molecular Visualization Program
. avida : Avida is an auto-adaptive genetic system designed for ALife research
. dotter : A viewer for multiple sequence alignments
. sim4 : An algorithm for aligning expressed DNA with genomic sequences
. seaview : Multiple DNA/protein sequence alignment editor
. gmap : A Genomic Mapping and Alignment Program for mRNA and EST Sequences
. platon : Tool for viewing molecular/crystallographic structures
. ncbi-toolkit : NCBI development toolkit, including BLAST 2 and GenBank/Entrez support
. phyml : A simple, fast, and accurate algorithm to estimate large phylogenies
. fasta : A collection of programs for searching DNA and protein databases
. mapm3 : Constructs linkage maps of markers segregating in experimental crosses
. mrbayes : Bayesian inference of phylogeny
. migrate : A program to estimate population sizes and migration rates
. ssaha : Very fast matching and alignment of DNA sequences
. mummer : A modular system for rapid whole genome alignment
. muscle : MUltiple Sequence Comparison by Log-Expectation
. phylip : A Phylogeny Inference Package
. spdbv : Deep View Swiss-PdbViewer is a Protein viewer and analysis tool
. blat : A fast tool for local sequence similarity searches
. fasta3 : A collection of programs for searching DNA and protein databases
. nclever : NClever is a character-based version of NCBI's Entrez program
. libsbml : An API Library for Working with SBML File
. tinker : A general purpose molecular modelling package
. paml : Phylogenetic Analysis by Maximum Likelihood (PAML)
. molden : Display molecular orbitals and electron densities in 2D and 3D
. linux-foldingathome : Distributed client for Protein Folding
. nab : A language for macromolecules
. treepuzzle : Maximum likelihood phylogeny reconstruction using quartets
. t_coffee : A multiple DNA or protein sequence alignment package
. mafft : Multiple sequence alignments based on fast Fourier transform
. kinemage : A molecular visualization program with special functions
. emboss : A collection of open source tools for genetic sequence analysis
. embassy : A collection of contributed EMBOSS applications
. mopac : Semi-empirical (MNDO, etc.) molecular orbital calculation
. artemis : A DNA sequence viewer and annotation tool
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