Collects bismark alignment reports
meta
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
align_report
:file
Bismark alignment reports
*{report.txt}
dedup_report
Bismark deduplication reports
*.{deduplication_report.txt}
splitting_report
Bismark splitting reports
*{splitting_report.txt}
mbias
Text file containing methylation bias information
*.{txt}
report
*report.{html,txt}
Bismark reports
*.{html,txt}
versions_bismark
${task.process}
:string
The name of the process
bismark
The name of the tool
bismark -v 2>&1 | sed -n 's/^.*Bismark Version: v//p'
:eval
The expression to obtain the version of the tool
versions
Bismark is a tool to map bisulfite treated sequencing reads and perform methylation calling in a quick and easy-to-use fashion.
