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The wiki holds documentation most relevant for develop. For information on a specific version of Truvari, see docs/

Citation:
English, A.C., Menon, V.K., Gibbs, R.A. et al. Truvari: refined structural variant comparison preserves allelic diversity. Genome Biol 23, 271 (2022). https://doi.org/10.1186/s13059-022-02840-6

Index

• Updates
• Installation
• Development

Truvari Commands:

• Benchmarking
  • bench - Performance metrics from comparison of two VCFs
  • refine - Automated bench result refinement with phab
• Merging
  • collapse Collapse redundant VCF entries
  • phab Variant harmonization using MSA
• Analysis
  • consistency Consistency report between multiple VCFs
  • stratify Count VCF entries inside BED regions
  • vcf2df Turn VCF into pandas DataFrame
  • stratp Stratification performance test
• Annotation
  • anno VCF Annotations
• Misc
  • segment Normalization of SVs into disjointed genomic regions
  • divide Divide a VCF into independent shards
  • ga4gh Convert Truvari result to GA4GH