AIS	Almost Invariant Sets.
AYB	Base calling software for the Illumina GA platform
EDIBLE	Experimental Design and Information By Likelihood Exploration.
kav	KAlignmentViewer - Interface for the display and browsing of multiple sequence alignments.
PASSML	Phylogeny and Secondary Structure using Maximum Likelihood.
pcrcoal	R package for coalescent simulations of PCR
PhyloSim	Monte Carlo simulation of sequence evolution
PRANK	Probabilistic Alignment Kit
webPRANK	Web server for PRANK sequence alignment
RATS	Resource Aware Taxon Selection
rlsim	rlsim collection of tools for simulating RNA-seq
RNAcode	Analysis of protein coding potential in multiple sequence alignments
SLR	Sitewise Likehood Ratio estimation of selection
simNGS	Simulating observations from Illumina NGS machines