Filter and trim long read data.
meta
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
fastq
:file
FastQ with reads from long read sequencing e.g. PacBio or ONT
*.{fastq.gz}
fasta
An optional reference fasta file against which to remove reads that align to it.
*.fasta
*.fastq.gz
Filtered and trimmed FastQ file
versions_chopper
${task.process}
:string
The name of the process
chopper
The name of the tool
chopper --version 2>&1 | cut -d ' ' -f 2
:eval
The expression to obtain the version of the tool
versions_pigz
pigz
The name of the tool used for compression / decompression
pigz --version | sed 's/pigz //g'
versions
A parallel implementation of gzip for modern multi-processor, multi-core machines.
argsargs3
A rust command line for filtering and trimming long reads.
$args2
