Bioinformatics Platform for Genome Canada // “An Integrated and Distributed Bioinformatics Platform for Genome Canada”

Bluejay // A Browser for Linear Units in Java - Bluejay is a set of Java™ objects for the processing, display and querying of XML encoded linear scale data. The main subjects for analysis are genetic and protein sequences.

ClustalX // Clustal X is a new windows interface for the ClustalW multiple sequence alignment program.

MacClade // A computer program for phylogenetic analysis written by David Maddison and Wayne Maddison. Its analytical strength is in studies of character evolution. It also provides many tools for entering and editing data and phylogenies, and for producing tree diagrams and charts.

Mesquite // Mesquite is software for evolutionary biology, designed to help biologists analyze comparative data about organisms. Its emphasis is on phylogenetic analysis, but some of its modules concern population genetics, while others do non-phylogenetic multivariate analysis.

Online ClustalW alignment // ClustalW2 is a general purpose multiple sequence alignment program for DNA or proteins. It produces biologically meaningful multiple sequence alignments of divergent sequences. It calculates the best match for the selected sequences, and lines them up so that the identities, similarities and differences can be seen. Evolutionary relationships can be seen via viewing Cladograms or Phylograms.

PHYLIP // A free package of programs for inferring phylogenies. It is distributed as source code, documentation files, and a number of different types of executables. These Web pages, by Joe Felsenstein of the Department of Genome Sciences at the University of Washington, contain information on PHYLIP and ways to transfer the executables, source code and documentation to your computer.

Phylogeny programs // Joe Felsenstein's comprehensive listing of phylogeny packages.