Description

Split VCF by chunks or regions, creating multiple VCFs.

Input

Name
Description
Pattern

0 ()

1 ()

2 ()

sites_per_chunk (integer)

How many variants should be in each output file Either this or scatter or scatter_file have to be given

scatter (string)

A comma delimited list of regions to scatter into Either this or sites_per_chunk or scatter_file have to be given

scatter_file (file)

A file containing a region on each line with an optional second column containing the filename Either this or sites_per_chunk or scatter have to be given

regions (file)

Optional file containing the regions to work on

*.bed

targets (file)

Optional file containing the regions to work on (but streams instead of index-jumping)

*.bed

Output

Name
Description
Pattern

0 ()

0 ()

0 ()

0 ()

Tools

pluginscatter Documentation

Split VCF by chunks or regions, creating multiple VCFs.

doi: 10.1093/gigascience/giab008License: MIT
Authors