Nextflow Registry | nf-core/trimmomatic@0.0.0-0c7146d

nf-core/trimmomatic @ 0.0.0-0c7146d

Performs quality and adapter trimming on paired end and single end reads

trimming adapter trimming quality trimming

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @alyssa-ab

Maintainers: @alyssa-ab

Performs quality and adapter trimming on paired end and single end reads

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

include { TRIMMOMATIC } from 'nf-core/trimmomatic'

MIT License

Process

`Name`	`TRIMMOMATIC`

Input 1 channel

#1 tuple

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

Output 6 channels

#1 out_log tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*_out.log` file	log of output from the standard out `*.log`

#2 summary tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.summary` file	trimmomatic summary file of surviving and dropped reads `*.summary`

#3 trim_log tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*_trim.log` file	trimmomatic log file, from the trim_log parameter `*.log`

#4 trimmed_reads tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`.paired.trim.fastq.gz` file	The trimmed/modified paired end fastq reads `.paired.trim.fastq.gz`

#5 unpaired_reads tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`.unpaired.trim_.fastq.gz` file	The trimmed/modified unpaired end fastq reads `.unpaired.trim_.fastq.gz`

#6 versions_trimmomatic tuple

`${task.process}` string	The name of the process
`trimmomatic` string	The name of the tool
`trimmomatic -version` eval	The expression to obtain the version of the tool

Tool	Description	Homepage
trimmomatic	A flexible read trimming tool for Illumina NGS data	http://www.usadellab.org/cms/?page=trimmomatic

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 19:20:02 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Ftrimmomatic/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/trimmomatic/blobs/sha256:29fe12c337cb33eb5b59a733c702a0f9e81028f05b516046fad9837cc7317dd7
Size	3.2 KB
Checksum	sha256:29fe12c337cb33eb5b59a733c702a0f9e81028f05b516046fad9837cc7317dd7
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 19:20:02 (UTC)		1	3.2 KB	-