nf-core/seacr/callpeak @ 0.0.0-6c4ed3a
Summary
Call peaks using SEACR on sequenced reads in bedgraph format
Get started
Add the following snippet to your workflow script to include this module.
include { SEACR_CALLPEAK } from 'nf-core/seacr/callpeak'
License
MIT License
Process
Name
|
SEACR_CALLPEAK |
|---|
Input
2 channels
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
bedgraph
file
|
The target bedgraph file from which the peaks will be calculated. |
ctrlbedgraph
file
|
Control (IgG) data bedgraph file to generate an empirical threshold for peak calling. |
threshold
integer
|
Threshold value used to call peaks if the ctrlbedgraph input is set to []. Set to 1 if using a control bedgraph |
|---|
Output
2 channels
#1
bed
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
*.bed
file
|
Bed file containing the calculated peaks. *.bed
|
#2
versions
versions.yml
file
|
File containing software versions versions.yml
|
|---|
| Tool | Description | Homepage |
|---|---|---|
| seacr | SEACR is intended to call peaks and enriched regions from sparse CUT&RUN or chromatin profiling data in which background is dominated by "zeroes" (i.e. regions with no read coverage). | https://github.com/FredHutch/SEACR |
| Version | 0.0.0-6c4ed3a |
|---|---|
| Commit ID | 6c4ed3a220310b905a1fc9d04f05be2e0837142b |
| Release Date | 23 Apr 2026 15:43:44 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Fseacr%2Fcallpeak/0.0.0-6c4ed3a/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/seacr/callpeak/blobs/sha256:c7e20956314841648d1d29077b12d800a06774d266df03463837b8b5fa6089b7 |
| Size | 2.7 KB |
| Checksum | sha256:c7e20956314841648d1d29077b12d800a06774d266df03463837b8b5fa6089b7 |
| Downloads | 4 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:43:44 (UTC) | 4 | 2.7 KB | |
| 0.0.0-3fc6d40 | 22 Apr 2026 15:30:07 (UTC) | 2 | 2.8 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 19:35:27 (UTC) | 3 | 2.7 KB |