Description

Collects bismark alignment reports

Input

Name (Type)
Description
Pattern

meta (map)

Groovy Map containing sample information
e.g. [ id:‘test’, single_end

]

align_report (file)

Bismark alignment reports

*{report.txt}

splitting_report (file)

Bismark splitting reports

*{splitting_report.txt}

dedup_report (file)

Bismark deduplication reports

*.{deduplication_report.txt}

mbias (file)

Text file containing methylation bias information

*.{txt}

fasta (file)

Input genome fasta file

Output

Name (Type)
Description
Pattern

meta (map)

Groovy Map containing sample information
e.g. [ id:‘test’, single_end

]

report (file)

Bismark reports

*.{html,txt}

versions (file)

File containing software versions

versions.yml
included in
methylseq
author
Github user phue
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Tools

bismark
GPL-3.0-or-later

Bismark is a tool to map bisulfite treated sequencing reads and perform methylation calling in a quick and easy-to-use fashion.

github.com/FelixKrueger/Bismark github.com/FelixKrueger/Bismark[...]Docs 10.1093/bioinformatics/btr167