Adapter and quality trimming of sequencing reads
meta:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end
reads:file
List of input FastQ files of size 1 and 2 for single-end and paired-end data, respectively.
contaminants:file
Reference files containing adapter and/or contaminant sequences for sequence kmer matching
reads
*.fastq.gz:file
The trimmed/modified fastq reads
*fastq.gz
log
*.log:file
Bbduk log file
*bbduk.log
versions
versions.yml:file
File containing software versions
versions.yml
BBMap is a short read aligner, as well as various other bioinformatic tools.
