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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: 0.0.0-6c4ed3a
Total downloads: 9
Source: nf-core/modules
Authors: @alyssa-ab
Maintainers: @alyssa-ab

Summary

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

Get started

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

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

License

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 6c4ed3a220310b905a1fc9d04f05be2e0837142b
Release Date 08 Apr 2026 19:44:14 (UTC)
Download URL https://registry.nextflow.io/api/v1/modules/nf-core%2Ftrimmomatic/0.0.0-0c7146d/download
OCI Store URL https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/trimmomatic/blobs/sha256:59b1685ad2e0efc6ffcb9ba4cafedb827830d30eae1b49c975efdf809dc1c7cb
Size 3.3 KB
Checksum sha256:59b1685ad2e0efc6ffcb9ba4cafedb827830d30eae1b49c975efdf809dc1c7cb
Downloads 3
Version Date Status 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