posteriors.zip

This directory contains summaries of the posterior distributions of parameters estimated by genomegaMap analyses of 10,209 Mycobacterium tuberculosis genomes in D. J. Wilson and The CRyPTIC Consortium (2019) for every coding sequence in the H37Rv reference genome (version 2, genbank accession number NC_000962.2).
The following files summarize all coding sequences:summary.csvEach row summarizes the posterior distribution of parameters for the named coding sequence, with column headingsCDScoding sequence nameGthetageometric mean theta (population-scaled mutation rate)Gkappageometric mean kappa (transition:transversion ratio)Gomegageometric mean omega (dN/dS ratio)Ethetaarithmetic mean thetaEkappaarithmetic mean kappaEomegaarithmetic mean omegatheta50median thetakappa50median kappaGomega50median (across codons) geometric mean omegatheta2.52.5 percentile thetakappa2.52.5 percentile kappaGomega2.52.5 percentile (across codons) geometric mean omegatheta97.597.5 percentile thetakappa97.597.5 percentile kappaGomega97.597.5 percentile (across codons) geometric mean omegaEpposarithmetic mean probability of positive selection (omega>1)H37Rv.cds.csvTab-delimited text file of genbank annotations for H37Rv (NC_000962.2) coding sequencesgenomegaMap.template.xmlTemplate xml file for genomegaMap analysis
The following files summarize the posterior distribution of omega (the dN/dS ratio) by coding sequence:Rv----.omega50.txtmedian omega per codonRv----.omega2.5.txt2.5 percentile omega per codonRv----.omega97.5.txt97.5 percentile omega per codonRv----.ppos.txtposterior probability of positive selection (omega>1) per codon