Description

This command replaces the former bcftools view caller. Some of the original functionality has been temporarily lost in the process of transition under htslib, but will be added back on popular demand. The original calling model can be invoked with the -c option.

Input

Name
Description
Pattern

0 ()

1 ()

2 ()

regions (file)

Optionally, restrict the operation to regions listed in this file. e.g. 'file.vcf'

targets (file)

Optionally, restrict the operation to regions listed in this file (doesn't rely upon index files) e.g. 'file.vcf'

samples (file)

Optional, file of sample names to be included or excluded. e.g. 'file.tsv'

Output

Name
Description
Pattern

0 ()

0 ()

0 ()

0 ()

Tools

view Documentation

View, subset and filter VCF or BCF files by position and filtering expression. Convert between VCF and BCF

doi: 10.1093/bioinformatics/btp352License: MIT
Authors