SVwiden¶
SVwiden reads a VCF file and uses MUMmer to determine widened coordinates for structural variants, adding custom tags to the VCF record.
Usage¶
svanalyzer widen --ref <reference FASTA file> --variants <VCF-formatted variant file> --prefix <prefix for output files>
Options¶
| 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”) |