Description

Merges methylation information for opposite-strand C’s in a CpG context

Input

name:type
description
pattern

meta{:bash}

:map

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

bed{:bash}

:file

Biscuit BED file (output of biscuit vcf2bed)

meta2{:bash}

:map

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

fasta{:bash}

:file

Input genome fasta file

meta3{:bash}

:map

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

index{:bash}

:directory

Directory containing biscuit genome index

Output

name:type
description
pattern

bed{:bash}

meta{:bash}

:map

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

*.bed.gz{:bash}

:file

Gzipped BED file with merged methylation information

*.bed.gz

versions{:bash}

versions.yml{:bash}

:file

File containing software versions

versions.yml

Tools

biscuit
MIT

A utility for analyzing sodium bisulfite conversion-based DNA methylation/modification data

huishenlab.github.io/biscuit huishenlab.github.io/biscuit/docs/methylextraction https://github.com/huishenlab/biscuit
maintainers
Github user njspix
Github user sateeshperi
get in touch
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