nf-core/hmmcopy/mapcounter @ 0.0.0-3fc6d40
Summary
mapCounter function from HMMcopy utilities, used to generate mappability in non-overlapping windows from a bigwig file
Get started
Add the following snippet to your workflow script to include this module.
include { HMMCOPY_MAPCOUNTER } from 'nf-core/hmmcopy/mapcounter'
License
MIT License
Process
Name
|
HMMCOPY_MAPCOUNTER |
|---|
Input
1 channel
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
bigwig
file
|
BigWig file with the mappability score of the genome, for instance made with generateMap function. *.wig
|
Output
2 channels
#1
wig
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
*.wig
file
|
wig file containing mappability of each window of the genome *.wig
|
#2
versions_hmmcopy
tuple
${task.process}
string
|
The name of the process |
|---|---|
hmmcopy
string
|
The name of the tool |
0.1.1
string
|
The expression to obtain the version of the tool |
| Tool | Description | Homepage |
|---|---|---|
| hmmcopy | C++ based programs for analyzing BAM files and preparing read counts -- used with bioconductor-hmmcopy | https://github.com/shahcompbio/hmmcopy_utils |
| Version | 0.0.0-3fc6d40 |
|---|---|
| Commit ID | 6c4ed3a220310b905a1fc9d04f05be2e0837142b |
| Release Date | 22 Apr 2026 15:16:26 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Fhmmcopy%2Fmapcounter/0.0.0-3fc6d40/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/hmmcopy/mapcounter/blobs/sha256:751f98878d1ec3dbc6f11c4ad6c7f927a12cd0b3d12345a95683f278edd12125 |
| Size | 2.3 KB |
| Checksum | sha256:751f98878d1ec3dbc6f11c4ad6c7f927a12cd0b3d12345a95683f278edd12125 |
| Downloads | 3 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:24:12 (UTC) | 3 | 2.3 KB | |
| 0.0.0-3fc6d40 | 22 Apr 2026 15:16:26 (UTC) | 3 | 2.3 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 19:09:31 (UTC) | 3 | 2.3 KB |