modules/biscuit_mergecg

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

biscuitDNA methylationWGBSscWGBSbisulfite sequencingalignerbed

https://github.com/nf-core/modules/[...]/modules/nf-core/biscuit/mergecg

Description

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

Input

name:type

description

pattern

`meta:map`

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

]

`bed:file`

Biscuit BED file (output of biscuit vcf2bed)

`meta2:map`

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

]

`fasta:file`

Input genome fasta file

`meta3:map`

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

]

`index:directory`

Directory containing biscuit genome index

Output

name:type

description

pattern

`bed`

`meta:map`

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

]

`*.bed.gz:file`

Gzipped BED file with merged methylation information

*.bed.gz

`versions`

`versions.yml: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

modules/biscuit_mergecg

Description

Input

meta:map

bed:file

meta2:map

fasta:file

meta3:map

index:directory

Output

bed

meta:map

*.bed.gz:file

versions

versions.yml:file

Tools

biscuit MIT

`meta:map`

`bed:file`

`meta2:map`

`fasta:file`

`meta3:map`

`index:directory`

`bed`

`meta:map`

`*.bed.gz:file`

`versions`

`versions.yml:file`

biscuit
MIT