Description
The VCFeval tool of RTG tools. It is used to evaluate called variants for agreement with a baseline variant set
Input
Name (Type)
Description
Pattern
A BED file containining the strict regions where VCFeval should only evaluate the fully overlapping variants (optional)
*.bed
A BED file containing the regions where VCFeval will evaluate every fully and partially overlapping variant (optional)
*.bed
Output
Name (Type)
Description
Pattern
A VCF file for the true positive variants from the baseline
*.tp-baseline.vcf.gz
The index of the VCF file for the true positive variants from the baseline
*.tp-baseline.vcf.gz.tbi
TSV files containing weighted ROC data for all variants
*.weighted_snp_roc.tsv.gz