|Paup Windows Interface software
|the PHYLogeny Inference Package
|a simple program for displaying phylogenies
|an experimental program for comparing gene and species trees.
|NEXUS Data Editor) is a program to create and edit NEXUS format data files
|an experimental program for comparing host and parasite trees
|a freeware utilities package that works with the phylogenetic inference package Phylip
|a computer program to reconstruct phylogenetic trees from molecular sequence data by maximum likelihood.
| a Java tool for the visualization of annotated phylogenetic trees
|a software package developed primarily for the construction and drawing of phylogenetic trees
|program for analysing evolutionary trees
| a tree drawing program able to draw any phylogenetic tree
|Molecular Evolutionary Genetics Analysis
| Selection on Amino Acid Properties
|software for evolutionary biology
|Analysis Library A Java library for molecular evolution and phylogenetics
|a collection of command line programs written in Java to access some selected features in PAL
| application for computing evolutionary networks from molecular sequence data.
|a Java computer program to estimate gene genealogies including multifurcations and/or reticulations (i.e. networks).
|a program for the calculation of the statistics and associated P-values for the nested clade analysis (NCA) developed by Templeton and collaborators.
|RDP 4.46 Beta
|Recombination detection program
|a distance based phylogeny reconstruction algorithm.
|Tree and Reticulogram reconstruction
|a computer package for PCs which estimates and tests gene diversities and differentiation statistics from codominant genetic markers
|ProfDist 0.9.9 Beta
|A tool for the construction of large phylogenetic trees based on profile distances
|a new distance-based clustering method, triplet clustering algorithm
|Phylogenetic Visualization tool
|a software package for PHylogenetics And Sequence Evolution
|Bayesian Analysis in Molecular Biology and Evolution
|phylogenetic model averaging
|a windows and linux interface for modeltest.
|determining the optimal phylogenetic supertree
|Phylogenetic Independence 2.0
|to conduct the Test For Serial Independence (TFSI) on continuously valued characters and the Runs Test on discretely valued characters (Abouheif 1999)
|a java implementation of the evolutionary trace method
|program for making phylogenetic trees starting from sequence data
|implements some straight-forward birth-death models for simulating phylogenies
|cross-platform program for Bayesian MCMC analysis of molecular sequences
|Macroevolutionary Analysis & Simulation
|Compare phylogenetic evolutionary trees interactively and automatically
| display a phylogenetic tree in several different styles
|a comprehensive phylogenetic tree visualization and manipulation software
|a computer program that simulates the branching of an evolutionary tree
|Genealogy Interval Explorer
|Phylogenetics, Evolutionary Biology, and Bioinformatics in a moduLar Environment
| a program for building and displaying phylogenetic trees
| a program for the Bayesian estimation of phylogeny,
|software for generating evolutionary trees and networks ,
|Phylogenetic Data Editor
|software for Parsimony ratchet analyses with PAUP.
|provides an easy and fast access to cophylogenetic analyses
| An interactive viewer for large phylogenetic trees
|TreeGraph 2.4.0-456 beta
| A graphical editor for phylogenetic trees.
| Primer design and sequence statistics for phylogenetic DNA data sets
|A tool to aid in the classification & evolutionary relationships of protein sequences.
| Dnamic graphics and annotations for phylogenetic or classification trees analyses .
| An editor for large phylogenetic trees written in Java.
|Bosque 2.0 alpha
|A graphycal software to perform phylogenetic analyses.
| An application for comparing two trees using coupled interaction.
| A graphical viewer of phylogenetic trees.
|A program for qualitative analysis of sets of trees.
| Likelihood estimation algorithms in phylogenetics.
| Phylogenetic tree drawing.
| Reconstruct Ancestral State in Phylogenies