Additional file 9 of Minos: variant adjudication and joint genotyping of cohorts of bacterial genomes

Additional file 9 Supplementary Table S8. Change in accuracy before and after running the joint genotyping pipeline on the Walker 2013 M. tuberculosis data. Joint genotyped precision is calculated in two ways: using just the non-reference allele calls, and using all calls. Note that this does not apply to the recall because in that case we only look for non-reference calls, and so including reference calls has no effect.