subworkflows/fastq_trim_fastp_fastqc
Read QC, fastp trimming and read qc
qcquality_controladapterstrimmingfastq
Input
Name (Type)
Description
Pattern
Structure: [ val(meta), path (reads) ]
Groovy Map containing sample information
e.g. [ id:‘test’, single_end
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. Structure: path(adapter_fasta)
File in FASTA format containing possible adapters to remove.
Structure: val(save_trimmed_fail)
Specify true to save files that failed to pass trimming thresholds ending in \*.fail.fastq.gz
Structure: val(save_merged)
Specify true to save all merged reads to the a file ending in \*.merged.fastq.gz
included in
maintainer
