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

Truvari: Refined Structural Variant Comparison Preserves Allelic Diversity
doi: https://doi.org/10.1101/2022.02.21.481353

Before you start

VCFs aren't always created with a strong adherence to the format's specification.

Truvari expects input VCFs to be valid so that it will only output valid VCFs.

We've developed a separate tool that runs multiple validation programs and standard VCF parsing libraries in order to validate a VCF.

Run this program over any VCFs that are giving Truvari trouble.

Furthermore, Truvari expects 'resolved' SVs (e.g. DEL/INS) and will not interpret BND signals across SVTYPEs (e.g. combining two BND lines to match a DEL call). A brief description of Truvari bench methodology is linked below.

Index

• Updates
• Installation
• Truvari Commands:
  • bench
    • The multimatch parameter
    • Edit Distance Ratio vs Sequence Similarity
    • Multi-allelic VCFs
    • stratifications.sh
    • Comparing two SV programs
  • consistency
  • anno
  • collapse
  • vcf2df
  • segment
• Development
• Citations
• Resources