Nextflow Registry | nf-core/biscuit/align@0.0.0-0c7146d

nf-core/biscuit/align @ 0.0.0-0c7146d

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

Latest version: 0.0.0-6c4ed3a

Total downloads: 5

Source: nf-core/modules

Authors: @njspix

Maintainers: @njspix @sateeshperi

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

Add the following snippet to your workflow script to include this module.

include { BISCUIT_ALIGN } from 'nf-core/biscuit/align'

MIT License

Process

`Name`	`BISCUIT_ALIGN`

Input 3 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`reads` file	List of input FastQ files of size 1 and 2 for single-end and paired-end data, respectively.

#2 tuple

`meta2` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`fasta` file	Input genome fasta file

#3 tuple

`meta3` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`index` directory	Directory containing biscuit genome index

Output 4 channels

#1 bai tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.bai` file	Output BAM index `*.{bai}`

#2 bam tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.bam` file	Output BAM file containing read alignments `*.{bam}`

#3 versions_biscuit tuple

`${task.process}` string	The name of the process
`biscuit` string	The name of the tool
`biscuit version \|& sed '1!d; s/^.*BISCUIT Version: //'` eval	The expression to obtain the version of the tool

#4 versions_samtools tuple

`${task.process}` string	The name of the process
`samtools` string	The name of the tool
`samtools --version \|& sed '1!d; s/^.*samtools //'` eval	The expression to obtain the version of the tool

Tool	Description	Homepage
biscuit	A utility for analyzing sodium bisulfite conversion-based DNA methylation/modification data	https://huishenlab.github.io/biscuit/

Version	0.0.0-0c7146d
Commit ID	6c4ed3a220310b905a1fc9d04f05be2e0837142b
Release Date	08 Apr 2026 18:47:47 (UTC)
Download URL	https://registry.nextflow.io/api/v1/modules/nf-core%2Fbiscuit%2Falign/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/biscuit/align/blobs/sha256:7a277c9a4d1f3f8edf2b8cc20334f110218148bf9e51c15343ec181fd46b6fea
Size	3.0 KB
Checksum	sha256:7a277c9a4d1f3f8edf2b8cc20334f110218148bf9e51c15343ec181fd46b6fea
Downloads	2

Version	Date	Status	Downloads	Size
0.0.0-6c4ed3a	23 Apr 2026 15:06:12 (UTC)		3	3.0 KB
0.0.0-0c7146d