Description

Compute and fill various INFO tags

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)

Optionally, list of samples (first column) and tab-separated list of populations (second column) e.g. 'file.vcf'

Output

Name
Description
Pattern

0 ()

0 ()

0 ()

0 ()

Tools

bcftools Documentation

BCFtools is a set of utilities that manipulate variant calls in the Variant Call Format (VCF) and its binary counterpart BCF. All commands work transparently with both VCFs and BCFs, both uncompressed and BGZF-compressed. Most commands accept VCF, bgzipped VCF and BCF with filetype detected automatically even when streaming from a pipe. Indexed VCF and BCF will work in all situations. Un-indexed VCF and BCF and streams will work in most, but not all situations.

https://github.com/samtools/bcftoolsdoi: 10.1093/bioinformatics/btp352License: MIT

bcftools plugin fill-tags Documentation

Bcftools plugins are tools that can be used with bcftools to manipulate variant calls in Variant Call Format (VCF) and BCF. The fill-tags plugin compute and fill various INFO tags

https://github.com/samtools/bcftoolsdoi: 10.1093/bioinformatics/btp352License: MIT
Authors