Description

Extract Fiber-seq information (such as m6A, CpG, nucleosomes, and MSPs) from BAM file into BED file

Input

name:type
description
pattern

meta{:bash}

:map

Groovy Map containing sample information e.g. [ id:'sample1' ]

bam{:bash}

:file

Sorted BAM/CRAM file

*.{bam,cram}

extract_type{:bash}

:string

Type of fiberseq information to extract e.g. m6a, cpg, msp, nuc, all

Output

name:type
description
pattern

bed{:bash}

meta{:bash}

:map

Groovy Map containing sample information e.g. [ id:'sample1' ]

*.bed.gz{:bash}

:file

Gzipped BED file with fiber-seq information

*.bed.gz

versions{:bash}

versions.yml{:bash}

:file

File containing software versions

versions.yml

Tools

included in
methylong
maintainer
Github user YiJin-Xiong
get in touch
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