Nextflow Registry | nf-core/biscuit/qc@0.0.0-6c4ed3a

nf-core/biscuit/qc @ 0.0.0-6c4ed3a

Perform basic quality control on a BAM file generated with Biscuit

Latest version: 0.0.0-6c4ed3a

Total downloads: 6

Source: nf-core/modules

Authors: @njspix

Maintainers: @njspix @sateeshperi

Perform basic quality control on a BAM file generated with Biscuit

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

include { BISCUIT_QC } from 'nf-core/biscuit/qc'

MIT License

Process

`Name`	`BISCUIT_QC`

Input 3 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`bam` file	BAM file produced using Biscuit

#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 2 channels

#1 reports tuple

`meta` file	Summary files containing the following information: CpG retention by position in read CpH retention by position in read Read duplication statistics Insert size distribution Distribution of mapping qualities Proportion of reads mapping to each strand Read-averaged cytosine conversion rate for CpA, CpC, CpG, and CpT `*.txt`
`*.txt` file	Summary files containing the following information: CpG retention by position in read CpH retention by position in read Read duplication statistics Insert size distribution Distribution of mapping qualities Proportion of reads mapping to each strand Read-averaged cytosine conversion rate for CpA, CpC, CpG, and CpT `*.txt`

#2 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

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

Version	0.0.0-6c4ed3a
Commit ID	6c4ed3a220310b905a1fc9d04f05be2e0837142b
Release Date	23 Apr 2026 15:06:26 (UTC)
Download URL	https://registry.nextflow.io/api/v1/modules/nf-core%2Fbiscuit%2Fqc/0.0.0-6c4ed3a/download
OCI Store URL	https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/biscuit/qc/blobs/sha256:59a5ef1d751e23e66fb446434ff12212c0982fc93f88727cd115c86238597602
Size	3.0 KB
Checksum	sha256:59a5ef1d751e23e66fb446434ff12212c0982fc93f88727cd115c86238597602
Downloads	3

Version	Date	Status	Downloads	Size
0.0.0-6c4ed3a	23 Apr 2026 15:06:26 (UTC)		3	3.0 KB
0.0.0-0c7146d	08 Apr 2026 18:48:00 (UTC)		3	3.0 KB