Nextflow Registry | nf-core/pints/caller@0.0.0-0c7146d

nf-core/pints/caller @ 0.0.0-0c7146d

Main caller script for peak calling

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @edmundmiller

Maintainers: @edmundmiller

Main caller script for peak calling

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

include { PINTS_CALLER } from 'nf-core/pints/caller'

MIT License

Process

`Name`	`PINTS_CALLER`

Input 2 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`bams` file	One or more BAM files `*.{bam}`
`bais` file	Corresponding BAM file indexes `*.bam.bai`

`assay_type` string	Assay type

Output 5 channels

#1 versions

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

#2 divergent_TREs tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*_divergent_peaks.bed` file	Divergent TREs `*_divergent_peaks.bed`

#3 peakcalling_log tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`peakcalling_*.log` file	Peakcalling log for debugging purposes `peakcalling_*.log`

#4 bidirectional_TREs tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*_bidirectional_peaks.bed` file	Divergent TREs and convergent TREs `*_bidirectional_peaks.bed`

#5 unidirectional_TREs tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*_unidirectional_peaks.bed` file	Unidirectional TREs, maybe lncRNAs transcribed from enhancers (e-lncRNAs) `*_unidirectional_peaks.bed`

Tool	Description	Homepage
pints	Peak Identifier for Nascent Transcripts Starts (PINTS)	https://pints.yulab.org/

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 19:03:18 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fpints%2Fcaller/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/pints/caller/blobs/sha256:84b053f53e41528607ac4ea7728a37422e5f16b9960865828d1f5752575ea53e
Size	3.4 KB
Checksum	sha256:84b053f53e41528607ac4ea7728a37422e5f16b9960865828d1f5752575ea53e
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 19:03:18 (UTC)		1	3.4 KB	-