Performs quality and adapter trimming on paired end and single end reads
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
trimmed_reads
*.paired.trim*.fastq.gz
The trimmed/modified paired end fastq reads
unpaired_reads
*.unpaired.trim_*.fastq.gz
The trimmed/modified unpaired end fastq reads
trim_log
*_trim.log
trimmomatic log file, from the trim_log parameter
*.log
out_log
*_out.log
log of output from the standard out
summary
*.summary
trimmomatic summary file of surviving and dropped reads
versions_trimmomatic
${task.process}
:string
The name of the process
trimmomatic
The name of the tool
trimmomatic -version
:eval
The expression to obtain the version of the tool
versions
A flexible read trimming tool for Illumina NGS data
