Gerry Tonkin-Hill

panaroo. An updated pipeline for pangenome investigation

fastbaps. A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data

panstripe. post processing of bacterial pangenome gene presence/absence matrices

pairsnp. A set of scripts for calculating pairwise SNP distance

tracs. Fast pairwise transmission inference from single genome and/or metagenomic data

rhierbaps. rhierbaps: R implementation of hierBAPS

TCGA_analysis. HTML

pairsnp-python. Python

pneumo_withinhost_manuscript. HTML

pairsnp-cpp. Fast pairwise SNP distance matrices from Multiple Sequence Alignments

SC2_withinhost. HTML

troms-_workshop. HTML

fasttranscluster. Python

panaroo_manuscript. HTML

genesearch. Python

strainspy. Strain level microbiome wide association studies

Efcm_Efcs_analysis. R

TransPhylo_mod. R

tracs_manuscript. Supplementary code and data for the TRACS manuscript

markers_atb. Python

mandrake-web. C++

falciparum_transcriptome_manuscript. HTML

atb-ecoli. Shell

global_var_manuscript. OpenEdge ABL