Description

FGBIO tool to zip together an unmapped and mapped BAM to transfer metadata into the output BAM

Input

Name (Type)
Description
Pattern

meta (map)

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

]

mbam (file)

mapped BAM/SAM file

*.{bam,sam}

ubam (file)

unmapped BAM file

*.bam

Output

Name (Type)
Description
Pattern

meta (map)

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

]

versions (file)

File containing software versions

versions.yml

bam (file)

Sorted BAM/CRAM/SAM file

*.{bam,cram,sam}
author
Github user lescai
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Tools

fgbio
MIT

A set of tools for working with genomic and high throughput sequencing data, including UMIs

http://fulcrumgenomics.github.io/fgbio http://fulcrumgenomics.github.io/fgbio/tools/latest https://github.com/fulcrumgenomics/fgbio