bam_impute_stitch

Subworkflow to impute BAM files using STITCH software. Variants location to impute are obtain through the legend file given

BAMimputationstitch

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

Description

Subworkflow to impute BAM files using STITCH software. Variants location to impute are obtain through the legend file given

Input

name

description

pattern

`ch_input`

Channel with input data

`ch_posfile`

Channel with position to call variants by chromosomes

`ch_chunks`

Channel with chromosome chunks data

`ch_map`

Channel with genetic map data

`ch_fasta`

Channel with reference genome data

`k_val`

K value for STITCH imputation

`n_gen`

Number of generations for STITCH imputation

`seed`

Random seed for STITCH imputation

Output