Commands list
Last updated: 2025-03-14
VCF manipulation
- harmonize-header Harmonize VCF headers
- harmonize Harmonize SV VCFs across samples and SV calling methods
- sample2pop Convert single-sample VCF to multi-sample VCF
- intersect Intersect SVs with genomic features
SV analysis
- represent Select the representative SV from merged SVs
- genotype Genotype SVs across SV genotyping methods
- filter Random forest filter for SVs
- concordance Calculate genotype concordance between two VCFs