Description

Combines multiple BedGraph files into a single file

Input

Name (Type)
Description
Pattern

meta (map)

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

]

bedgraph (file)

Input BedGraph file: four column BED format, with 4th column with numerical values: integer or real, positive or negative

*.{bedGraph,bedgraph}

meta2 (map)

Groovy Map containing meta information for the reference chromosome sizes
e.g. [ id:‘test’ ]

chrom_sizes (file)

Chromosome sizes file

*{.sizes,.txt}

Output

Name (Type)
Description
Pattern

meta (map)

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

]

bed (file)

Combined BED file with values from all bedGraph files

*.{bed}

versions (file)

File containing software versions

versions.yml
author
Github user ekushele
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Tools

bedtools
MIT

A set of tools for genomic analysis tasks, specifically enabling genome arithmetic (merge, count, complement) on various file types.

bedtools.readthedocs.io/en/latest/content/tools/slop