Description

Index a reference genome FASTA file using SVDSS (via ropebwt3), producing either an FMD or FMR index for use with SVDSS smooth and search subcommands

Input

Name
Description
Pattern

0 ()

1 ()

output_format (string)

Output index format. Use 'fmd' for the fermi-delta format (adds -d flag) or 'fmr' for the ropebwt format (adds -b flag).

fmd|fmr

Output

Name
Description
Pattern

0 ()

0 ()

Tools

svdss Documentation

SVDSS is a tool for structural variant discovery from short-read sequencing data. It implements an FM-index-based approach to efficiently detect SVs against a reference genome.

doi: 10.1038/s41592-022-01674-1License: MIT
Authors