vcf_impute_glimpse

Impute VCF/BCF files with Glimpse

glimpsechunkphaseligate

https://github.com/nf-core/modules/[...]/subworkflows/nf-core/vcf_impute_glimpse

Description

Impute VCF/BCF files with Glimpse

Input

name

description

pattern

`ch_vcf`

Channel with target VCF files

`ch_ref`

Channel with reference phased VCF files

`ch_chunks`

Channel with chunks data

`ch_map`

Channel with genetic map data (optional)

`chunk`

Whether to perform chunking of the input data before imputation.

Output

name

description

pattern

`chunks`

Tab delimited output txt file containing buffer and imputation regions.
Structure: [meta, txt]

`merged_variants`

Output phased VCF/BCF file for the merged regions.
Phased information (HS field) is updated accordingly for the full region.
Structure: [ val(meta), bcf ]

`merged_variants_index`

Index output of phased VCF/BCF file for the merged regions.
Structure: [ val(meta), csi ]