Software
A Bayesian framework for measuring and testing phylogeny-trait associations
A program for the inference of demographic history from molecular phylogenies
A program that uses Blast to align problematic nucleotide sequences
Generates plots of site-wise variation along a sequence alignment (including the Shannon Entropy and Hamming Distance measures)
Bayesian Evolutionary Analysis Sampling Trees
A program to estimate the rate of adaptive fixation in a population from sequences sampled at different points in time.
Hepatitis C Virus Subtyping Tool
An online program that uses phylogenetic methods to identify the subtype and genotype of query sequences.