nf-core/bismark/summary @ 0.0.0-0c7146d
Summary
Uses Bismark report files of several samples in a run folder to generate a graphical summary HTML report.
Get started
Add the following snippet to your workflow script to include this module.
include { BISMARK_SUMMARY } from 'nf-core/bismark/summary'
License
MIT License
Process
Name
|
BISMARK_SUMMARY |
|---|
Input
5 channels
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
2 channels
#1
summary
*report.{html,txt}
file
|
Bismark summary *.{html,txt}
|
|---|
#2
versions_bismark
tuple
${task.process}
string
|
The name of the process |
|---|---|
bismark
string
|
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 |
| Tool | Description | Homepage |
|---|---|---|
| bismark | Bismark is a tool to map bisulfite treated sequencing reads and perform methylation calling in a quick and easy-to-use fashion. | https://github.com/FelixKrueger/Bismark |
| Version | 0.0.0-0c7146d |
|---|---|
| Commit ID | 135d883a43b1a2324b4112cd270cf22e20835533 |
| Release Date | 08 Apr 2026 18:28:01 (UTC) |
| Download URL | https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fbismark%2Fsummary/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/bismark/summary/blobs/sha256:08061dae3e9f2995389e31a22779e9bbce77d745c074b6654caa8f766c719bb4 |
| Size | 2.8 KB |
| Checksum | sha256:08061dae3e9f2995389e31a22779e9bbce77d745c074b6654caa8f766c719bb4 |
| Downloads | 1 |
| Version | Date | Status | Downloads | Size | Diff |
|---|---|---|---|---|---|
| 0.0.0-0c7146d | 08 Apr 2026 18:28:01 (UTC) | 1 | 2.8 KB | - |