Nextflow Registry | nf-core/ribotish/quality@0.0.0-0c7146d

nf-core/ribotish/quality @ 0.0.0-0c7146d

Quality control of riboseq bam data

riboseq quality bam

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @pinin4fjords

Maintainers: @pinin4fjords

Quality control of riboseq bam data

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

include { RIBOTISH_QUALITY } from 'nf-core/ribotish/quality'

MIT License

Process

`Name`	`RIBOTISH_QUALITY`

Input 2 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', single_end:false ]`
`bam` file	Sorted BAM/CRAM/SAM file `*.{bam}`
`bai` file	Index for sorted BAM/CRAM/SAM file `*.{bai}`

#2 tuple

`meta2` map	Groovy Map containing reference information e.g. `[ id:'Ensembl human v.111' ]`
`gtf` file	GTF-format annotation file for reference sequences used in the bam file `*.gtf`

Output 4 channels

#1 pdf tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', single_end:false ]`
`*.pdf` file	Pdf figure file is plot of all the distributions and illustration of quality and P-site offset `*.{pdf}`

#2 offset tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', single_end:false ]`
`*.para.py` file	This file saves P-site offsets for different reads lengths in python code dict format, and can be used in further analysis `*.{para.py}`

#3 versions

`versions.yml` file	File containing software versions `versions.yml`

#4 distribution tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', single_end:false ]`
`*.txt` file	file containing distribution `*.{txt}`

Tool	Description	Homepage
ribotish	Ribo TIS Hunter (Ribo-TISH) identifies translation activities using ribosome profiling data.	https://github.com/zhpn1024/ribotish

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 19:08:10 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fribotish%2Fquality/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/ribotish/quality/blobs/sha256:07014ed24227e7efb714d83303f634378656e3b8c0f4a2264ce194b2758d903b
Size	2.8 KB
Checksum	sha256:07014ed24227e7efb714d83303f634378656e3b8c0f4a2264ce194b2758d903b
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 19:08:10 (UTC)		1	2.8 KB	-