Description

CIRCexplorer2 parses fusion junction files from multiple aligners to prepare them for CIRCexplorer2 annotate.

Input

Name (Type)
Description
Pattern

meta (map)

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

]

fusions (file)

BAM (BWA), BED (Segemehl), TXT (MapSplice), or Junction (STAR) file. Aligner will be autodetected based on file suffix.

*.{bam,junction,bed,txt}

Output

Name (Type)
Description
Pattern

meta (map)

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

]

bed (file)

Standardized fusion junction file suitable for CIRCexplorer2 annotate module.

*.{bam,cram,sam}

versions (file)

File containing software versions

versions.yml
included in
circrna
author
Github user BarryDigby
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