Nextflow Registry | nf-core/picard/meanqualitybycycle@0.0.0-0c7146d

nf-core/picard/meanqualitybycycle @ 0.0.0-0c7146d

Collect metrics about the mean quality by cycle of a paired-end library.

metrics alignment mean statistics bam

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @mikefeixu @FerriolCalvet

Maintainers: @mikefeixu

Collect metrics about the mean quality by cycle of a paired-end library.

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

include { PICARD_MEANQUALITYBYCYCLE } from 'nf-core/picard/meanqualitybycycle'

MIT License

Process

`Name`	`PICARD_MEANQUALITYBYCYCLE`

Input 1 channel

#1 tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`bam` file	BAM/CRAM/SAM file `*.{bam,cram,sam}`

Output 3 channels

#1 pdf tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.pdf` file	Chart in PDF format `*.pdf`

#2 metrics tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.txt` file	Values used by Picard to generate chart. `*.txt`

#3 versions_picard tuple

`${task.process}` string	The process the versions were collected from
`picard` string	The tool name
`picard MeanQualityByCycle --version 2>&1 \| sed -n 's/.*Version://p'` string	The command used to generate the version of the tool

Tool	Description	Homepage
picard	Java tools for working with NGS data in the BAM format	https://broadinstitute.github.io/picard/

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 19:02:54 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fpicard%2Fmeanqualitybycycle/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/picard/meanqualitybycycle/blobs/sha256:2927edbea7050984a92a56788032ce0ff078a85d94b2d6e7b8bfb8c2f6ca607e
Size	2.7 KB
Checksum	sha256:2927edbea7050984a92a56788032ce0ff078a85d94b2d6e7b8bfb8c2f6ca607e
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 19:02:54 (UTC)		1	2.7 KB	-