Description

Sets genotypes according to the specified criteria and filtering expressions. For example, missing genotypes can be set to ref, but much more than that.

Input

Name
Description
Pattern

0 ()

1 ()

2 ()

0 ()

0 ()

0 ()

0 ()

Output

Name
Description
Pattern

vcf ()

tbi ()

csi ()

versions ()

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 setGT Documentation

Bcftools plugins are tools that can be used with bcftools to manipulate variant calls in Variant Call Format (VCF) and BCF. The setGT plugin sets genotypes according to the specified criteria and filtering expressions. For example, missing genotypes can be set to ref, but much more than that.

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