modules/fastp
Perform adapter/quality trimming on sequencing reads
Input
Groovy Map containing sample information. Use ‘single_end: true’ to specify single ended or interleaved FASTQs. Use ‘single_end: false’ for paired-end reads.
e.g. [ id:‘test’, single_end
List of input FastQ files of size 1 and 2 for single-end and paired-end data,
respectively. If you wish to run interleaved paired-end data, supply as single-end data
but with --interleaved_in
in your modules.conf
’s ext.args
for the module.
File in FASTA format containing possible adapters to remove.
*.{fasta,fna,fas,fa}
Specify true to not write any reads that pass trimming thresholds. | This can be used to use fastp for the output report only.
Specify true to save files that failed to pass trimming thresholds ending in \*.fail.fastq.gz