Description

Uses Bismark report files of several samples in a run folder to generate a graphical summary HTML report.

Input

Name (Type)
Description
Pattern

bam (list)

List of Bismark alignment BAM filenames

*.bam

align_report (file)

Bismark alignment reports

*report.txt

dedup_report (file)

Bismark deduplication reports

*.deduplication_report.txt

splitting_report (file)

Bismark splitting reports

*splitting_report.txt

mbias (file)

Text file containing methylation bias information

*.txt

Output

Name (Type)
Description
Pattern

summary (file)

Bismark summary

*.{html,txt}

versions (file)

File containing software versions

versions.yml
included in
methylseq
maintainer
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