Last Update: 8/14/2015
 
Representative Databases

NCBI http://www.ncbi.nlm.nih.gov/

SWISS-PROT http://www.ebi.ac.uk/swissprot/

Ensembl http://www.ensembl.org

Pfam http://www.sanger.ac.uk/Software/Pfam/

EBI http://www.ebi.ac.uk/

 
Gibbs Sampling

Gibbs Motif Sampler http://bayesweb.wadsworth.org/gibbs/gibbs.html

AignAce http://atlas.med.harvard.edu/cgi-bin/alignace.pl

BioProspector http://ai.stanford.edu/~xsliu/BioProspector/

 
Phylogenetic Analysis

PHYLIP http://evolution.genetics.washington.edu/phylip.html

 
RNA structure

MFold http://www.bioinfo.rpi.edu/applications/mfold/

PKNotsRG http://bibiserv.techfak.uni-bielefeld.de/pknotsrg/

PseudoBase http://pseudobaseplusplus.utep.edu/

Genebee http://www.genebee.msu.su/

Vienna RNA package http://www.tbi.univie.ac.at/~ivo/RNA

 
Statistical Computing

Bioconductor http://www.bioconductor.org

R http://www.r-project.org/

 
Protein structure

SCO http://scop.berkeley.edu/

Protein Data Bank http://www.pdb.org

DALI http://www.ebi.ac.uk/dali/

DSSP http://swift.cmbi.ru.nl/gv/dssp/

 
Protein-protein interaction database

MIPS http://mips.gsf.de/

HPRD http://www.hprd.org

 
Miscellaneous

WebLogo http://weblogo.berkeley.edu/

PyMOL http://pymol.sourceforge.net/

 
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