Tool for common data-quality-related trimming, filtering, and masking operations
The BBDuk module produces summary statistics from the stdout logging information from the BBDuk tool of the BBTools suite of tools.
“Duk” stands for Decontamination Using Kmers. BBDuk was developed to combine most common data-quality-related trimming, filtering, and masking operations into a single high-performance tool.
The module can summarise data from the following BBDuk funtionality (descriptions from command line help output):
entropy- entropy filtering
ktrim- kmer trimming
qtrim- quality trimming
maq- read quality filtering
Additional information on the BBMap tools is available on SeqAnswers.
File search patterns
bbduk: contents: Executing jgi.BBDuk num_lines: 2