nf-core/modkit/callmods @ 0.0.0-0c7146d
Summary
Call mods from a modbam, creates a new modbam with probabilities set to 100% if a base modification is called or 0% if called canonical
Get started
Add the following snippet to your workflow script to include this module.
include { MODKIT_CALLMODS } from 'nf-core/modkit/callmods'
License
MIT License
Process
Name
|
MODKIT_CALLMODS |
|---|
Input
1 channel
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. |
|---|---|
bam
file
|
BAM file *.bam
|
Output
3 channels
#1
bam
tuple
meta
map
|
Groovy Map containing sample information e.g. |
|---|---|
*.bam
file
|
BAM file with base modification probabilities |
#2
log
tuple
meta
map
|
Groovy Map containing sample information e.g. |
|---|---|
*.log
file
|
File for debug logs to be written to |
#3
versions_modkit
tuple
${task.process}
string
|
The name of the process |
|---|---|
modkit
string
|
The name of the tool |
modkit --version | sed 's/modkit //'
eval
|
The expression to obtain the version of the tool |
| Tool | Description | Homepage |
|---|---|---|
| modkit | A bioinformatics tool for working with modified bases in Oxford Nanopore sequencing data. | https://nanoporetech.github.io/modkit/ |
| Version | 0.0.0-0c7146d |
|---|---|
| Commit ID | 135d883a43b1a2324b4112cd270cf22e20835533 |
| Release Date | 08 Apr 2026 18:56:54 (UTC) |
| Download URL | https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fmodkit%2Fcallmods/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/modkit/callmods/blobs/sha256:374e5002f6b4b0753724be5270b58e03497d3ca7be4b8a7d31a0aa38abb6136c |
| Size | 2.5 KB |
| Checksum | sha256:374e5002f6b4b0753724be5270b58e03497d3ca7be4b8a7d31a0aa38abb6136c |
| Downloads | 1 |
| Version | Date | Status | Downloads | Size | Diff |
|---|---|---|---|---|---|
| 0.0.0-0c7146d | 08 Apr 2026 18:56:54 (UTC) | 1 | 2.5 KB | - |