Re-pairs reads that became disordered or had some mates eliminated.
meta{:bash}
:map
Groovy Map containing sample information e.g. [ id:'sample1', single_end:false ]
[ id:'sample1', single_end:false ]
reads{:bash}
:file
List of input paired end fastq files
*.{fastq,fq}.gz
interleave{:bash}
:boolean
Indicates whether the input paired reads are interleaved or not
repaired{:bash}
*_repaired.fastq.gz{:bash}
re-paired reads
*_repaired.fastq.gz
singleton{:bash}
${prefix}_singleton.fastq.gz{:bash}
singleton reads
*singleton.fastq.gz
versions{:bash}
versions.yml{:bash}
File containing software versions
versions.yml
log{:bash}
*.log{:bash}
log file containing stdout and stderr from repair.sh
*.log
Repair.sh is a tool that re-pairs reads that became disordered or had some mates eliminated tools.
