cyvcf2
fast parsing of VCF and BCF including region-queries
- Provided by: python3-cyvcf2 (Version: 0.30.14-1build1)
- Source: cyvcf2
- Report a bug
SYNOPSIS
cyvcf2 [OPTIONS] <vcf_file> or -
DESCRIPTION
- fast vcf parsing with cython + htslib
OPTIONS
- -c, --chrom TEXT
- Specify what chromosome to include.
- -s, --start INTEGER
- Specify the start of region.
- -e, --end INTEGER
- Specify the end of the region.
- --include TEXT
- Specify what info field to include.
- --exclude TEXT
- Specify what info field to exclude.
- -i, --individual TEXT
- Only print genotype call for individual.
- --no-inds
- Do not print genotypes.
- --loglevel [DEBUG|INFO|WARNING|ERROR|CRITICAL]
- Set the level of log output. [default: INFO]
- --silent
- Skip printing of vcf.
- --help
- Show this message and exit.