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Michael Woodhams's Projects

abc icon abc

Approximate Bayesian Computation on hybrid simulations - subsumed into HybridSim. The 'main' for HybridSim is here.

beastliemarkov icon beastliemarkov

Beast 2 plugin implementing the distingished pair Lie Markov models of DNA evolution

biojavaextensions icon biojavaextensions

Reusable code extending the capabilities of Biojava 1.8.4. (Old version because I'm using Nexus parsing, which didn't make it to later Biojava versions.)

bisse icon bisse

R code for BiSSE paper Ketelaar Jones et al.

hybridseq icon hybridseq

Simulates phylogeny with reticulation and produces sequences. Subsumed into the HybridSim program.

hybridstats icon hybridstats

Summary statistics on gene trees over a fixed set of taxa. Subsumed into HybridSim program.

iq-tree icon iq-tree

Efficient phylogenetic software by maximum likelihood

mdwutils icon mdwutils

Miscellaneous code I use in multiple projects, not dependent on third party libraries (such as PAL or BioJava)

pal-1.5.1 icon pal-1.5.1

Phylogenetics Applications Library, version 1.5.1. THIS IS NOT MY WORK.

pal-mdw icon pal-mdw

A modified version of the Phylogenetics Analysis Library (PAL, 1.5.1)

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