Description

Aligns single- or paired-end reads from bisulfite-converted libraries to a reference genome using Biscuit.

Input

Name (Type)
Description
Pattern

meta (map)

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

]

reads (file)

List of input fastq files of size 1 and 2 for single-end and paired-end data,
respectively.

index (directory)

Biscuit genome index directory (generated with ‘biscuit index’)

BiscuitIndex

Output

Name (Type)
Description
Pattern

meta (map)

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

]

bam (file)

Output BAM file containing read alignments

*.{bam}

bai (file)

Output BAM index

*.{bai}

versions (file)

File containing software versions

versions.yml
author
Github user njspix
get in touch
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Tools

biscuit
MIT

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

huishenlab.github.io/biscuit huishenlab.github.io/biscuit/docs/alignment https://github.com/huishenlab/biscuit