Ratio: Transitions/Transversions (ti/tv)

• ID: ratio_transitions_transversions_snv
• Description: The ratio of transitions and transversions of bi-allelic SNVs in VCF, only in autosomal regions, high quality variants.
• Implementation details: In the NPM-sample-QC reference implementation, calculate the ratio of transitions and transversions of bi-allelic SNVs in VCF, only in autosomal regions, high quality-variants by bcftools stats, (bcftools stats -f PASS ... TSTV).
• Type: Float 2 decimal precision (eg. 1.12)
• Functionally equivalent implementations:
  • NPM sample qc
  • ICGC-ARGO vcfqc