Description

Writes an interval list created by splitting a reference at Ns.A Program for breaking up a reference into intervals of alternating regions of N and ACGT bases

Input

name:type
description
pattern

meta:map

Groovy Map containing fasta information e.g. [ id:‘test’, single_end

]

fasta:file

Fasta file to derive the intervals from

*.{fasta,fa,fna}

meta2:map

Groovy Map containing fai information e.g. [ id:‘test’, single_end

]

fai:file

Index of the fasta file

*.fai

meta3:map

Groovy Map containing dictionary information e.g. [ id:‘test’, single_end

]

dict:file

Sequence dictionary of the fasta file

*.dict

Output

name:type
description
pattern

intervals

meta:map

Groovy Map containing sample information e.g. [ id:‘test’, single_end

]

*.interval_list:file

The scattered intervals

*.interval_list

s:file

The scattered intervals

*.interval_list

versions

versions.yml:file

File containing software versions

versions.yml

Tools

picard
MIT

A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.

broadinstitute.github.io/picard https://github.com/broadinstitute/picard
maintainer
Github user nvnieuwk
get in touch
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