29 March 2006
Molecular Linux
Molecular Biology related programs for Linux
14 March 2006
Simloc
detection of local similarities
Naccess
Naccess is a stand alone program that calculates the accessible area of a molecule from a PDB (Protein Data Bank) format file.
GRAMM
GRAMM is a program for protein docking.
DomainFinder
DomainFinder is an interactive program for the determination and characterization of dynamical domains in proteins.
13 March 2006
TreeView X
A phylogenetic tree viewer
T-coffee
A multiple DNA or protein sequence alignment package.
SeaView
Multiple DNA/protein sequence alignment editor.
PovChem
Simple yet powerful tool to generate POV from a PDB file
PAML
Phylogenetic Analysis by Maximum Likelihood (PAML)
NAB
A language for macromolecules.
Jalview
A viewer and editor for multiple sequence alignments.
GRAPPA
Genome Rearrangements Analysis under Parsimony and other Phylogenetic Algorithms
ARIADNE
Programs to compare protein sequences and profiles
fastDNAml
Program derived from Joseph Felsenstein's version 3.3 DNAML
FTP du TIGR
FTP du TIGR
GP and Arka HomePage
Manipulate DNA/RNA sequence in a Unix fashion.
Graphic interface for the programs from the GP package
HMMER
HMMER: profile HMMs for protein sequence analysis
TIGR - software tools
The Institute for Genomic Research
NW
A pairwise Needleman and Wunsch sequence alignment program
