Nextflow Registry | nf-core/trimmomatic@0.0.0-3fc6d40

nf-core/trimmomatic @ 0.0.0-3fc6d40

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

trimming adapter trimming quality trimming

Latest version: 0.0.0-6c4ed3a

Total downloads: 9

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	0.0.0-3fc6d40
Commit ID	6c4ed3a220310b905a1fc9d04f05be2e0837142b
Release Date	22 Apr 2026 15:34:47 (UTC)
Download URL	https://registry.nextflow.io/api/v1/modules/nf-core%2Ftrimmomatic/0.0.0-3fc6d40/download
OCI Store URL	https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/trimmomatic/blobs/sha256:75d0852d0f7d7ee4f42387115a644dc6512666e12e0e4d76b00ff947a7fbe21f
Size	3.3 KB
Checksum	sha256:75d0852d0f7d7ee4f42387115a644dc6512666e12e0e4d76b00ff947a7fbe21f
Downloads	2

Version	Date	Downloads	Size
0.0.0-6c4ed3a	23 Apr 2026 15:50:11 (UTC)	4	3.3 KB
0.0.0-3fc6d40	22 Apr 2026 15:34:47 (UTC)	2	3.3 KB
0.0.0-0c7146d	08 Apr 2026 19:44:14 (UTC)	3