Software
A Bayesian framework for measuring and testing phylogeny-trait associations
A program for the inference of demographic history from molecular phylogenies
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.
Oxford Hepatitis C Virus Subtyping Tool
An online program that uses phylogenetic methods to identify the HCV subtype and genotype of query sequences.
An R package that combines GIS and phylogeographic methods to test whether environmental factors can explain ecological dispersal.
A Java program that extracts clusters defined by a threshold TMRCA from molecular clock phylogenies.
An R package that analyses the extent to which differential survival with respect to higher level trait variation is reducible to lower level variation.
TempEst is a program that is used to investigate the temporal signal and 'clock-likeness' of molecular phylogenies.
IgPhyML is a program for the phylogenetic analysis of B cell receptor (immunoglobulin) sequences, that implements a new codon substitution model of somatic hypermutation.
Dengue, Zika & Chikungunya Viruses Typing Tool
An online program that uses phylogenetic methods to identify the arboviral species and genotype of query sequences.
