SVwiden reads a VCF file and uses MUMmer to determine widened coordinates for structural variants, adding custom tags to the VCF record.


svanalyzer widen --ref <reference FASTA file> --variants <VCF-formatted variant file> --prefix <prefix for output files>


Option Description
–help|–manual Display documentation.
–ref The reference FASTA file for the supplied VCF file or files.
–variants A VCF-formatted file of (possibly equivalent) variants to merge.
–fof A file of paths to VCF-formatted files to merge.
–prefix Prefix for output file names (default: “widened”)