Software - Musharof Chy
Component
For analysis of phylogenies. Includes a wide range of randomization methods, consensus methods, tre...
PHYLIP
Joe Felsenstein's suite of programs implementing perhaps the widest range of phylogenetic inference...
Phylodendron
Java application for drawing phylogenetic trees. Allows you to save in various formats, print, edit...
GeneTree
Uses reconciled trees to compare gene trees and species trees, explaining incongruence between the ...
Tree Puzzle
Computer program to reconstruct phylogenetic trees from molecular sequence data by maximum likeliho...
NONA - A Quick Guide to the Commands
A brief overview of using NONA for phylogenetic analysis.
Phylo-Win
Graphical color interface for molecular phylogenetic inference. It performs neighbor-joining, parsi...
PAML
Phylogenetic analyses of DNA or protein sequences using maximum likelihood.
Mesquite
Experimental, modular software for evolutionary biology, designed to help biologists analyze compar...
PAUP*
PAUP is the most widely used package for phylogenetic inference, and now implements maximum likelih...