Simon Harris

SKA. Split Kmer Analysis

pyjar. A python implementation of the joint ancestral state reconstruction algorithm of Pupko et al

in_silico_pcr. Script to run an in silico pcr for a set of primer pairs on an assembly

tree_gubbins. Clustering of isolates on a phylogenetic tree using a spatial scan statistic

pairwise_difference_count. Counts pairwise differences between sequences in DNA alignments