Filter out sequences by sequence header name(s)
meta
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
reads
:file
List of input FastQ files of size 1 and 2 for single-end and paired-end data, respectively.
names_to_filter
:string
String containing names of reads to filter out of the fastq files.
output_format
String with the format of the output file, e.g. fastq.gz, fasta, fasta.bz2
interleaved_output
:boolean
Whether to produce an interleaved fastq output file
*.${output_format}
The trimmed/modified fastq reads
*${output_format}
log
*.log
filterbyname.sh log file
*.filterbyname.log
versions_bbmap
${task.process}
The name of the process
bbmap
The name of the tool
bbversion.sh | grep -v "Duplicate cpuset"
:eval
The expression to obtain the version of the tool
versions
BBMap is a short read aligner, as well as various other bioinformatic tools.
