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).<br>The following files summarize all coding sequences:summary.csv Each row summarizes the posterior distribution of parameters for the named coding sequence, with column headings CDS coding sequence name Gtheta geometric mean theta (population-scaled mutation rate) Gkappa geometric mean kappa (transition:transversion ratio) Gomega geometric mean omega (dN/dS ratio) Etheta arithmetic mean theta Ekappa arithmetic mean kappa Eomega arithmetic mean omega theta50 median theta kappa50 median kappa Gomega50 median (across codons) geometric mean omega theta2.5 2.5 percentile theta kappa2.5 2.5 percentile kappa Gomega2.5 2.5 percentile (across codons) geometric mean omega theta97.5 97.5 percentile theta kappa97.5 97.5 percentile kappa Gomega97.5 97.5 percentile (across codons) geometric mean omega Eppos arithmetic mean probability of positive selection (omega&gt;1)H37Rv.cds.csv Tab-delimited text file of genbank annotations for H37Rv (NC_000962.2) coding sequencesgenomegaMap.template.xml Template xml file for genomegaMap analysis<br>The following files summarize the posterior distribution of omega (the dN/dS ratio) by coding sequence:Rv----.omega50.txt median omega per codonRv----.omega2.5.txt 2.5 percentile omega per codonRv----.omega97.5.txt 97.5 percentile omega per codonRv----.ppos.txt posterior probability of positive selection (omega&gt;1) per codon<br>