nf-core/pypgx/preparedepthofcoverage @ 0.0.0-0c7146d
Summary
Prepare a depth of coverage file for all target genes with SV from BAM files.
Get started
Add the following snippet to your workflow script to include this module.
include { PYPGX_PREPAREDEPTHOFCOVERAGE } from 'nf-core/pypgx/preparedepthofcoverage'
License
MIT License
Process
Name
|
PYPGX_PREPAREDEPTHOFCOVERAGE |
|---|
Input
1 channel
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. |
|---|---|
bam
file
|
Input BAM file *.{bam}
|
bai
file
|
Input BAM index file *.{bam.bai}
|
Output
2 channels
#1
coverage
tuple
meta
map
|
Groovy Map containing sample information e.g. *.{zip}
|
|---|---|
*.zip
map
|
Groovy Map containing sample information e.g. *.{zip}
|
#2
versions_pypgx
tuple
${task.process}
string
|
The name of the process |
|---|---|
pypgx
string
|
The name of the tool |
pypgx -v 2>&1 | grep -oE "[0-9]+\.[0-9]+\.[0-9]+" | head -1
eval
|
The expression to obtain the version of the tool |
| Tool | Description | Homepage |
|---|---|---|
| pypgx | A Python package for pharmacogenomics research | https://pypgx.readthedocs.io/en/latest/ |
| Version | 0.0.0-0c7146d |
|---|---|
| Commit ID | 135d883a43b1a2324b4112cd270cf22e20835533 |
| Release Date | 08 Apr 2026 19:06:14 (UTC) |
| Download URL | https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fpypgx%2Fpreparedepthofcoverage/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/pypgx/preparedepthofcoverage/blobs/sha256:adf504c41cb805eb547794171dc8893289a7f3e7b0e0d7d65c0446657c55c6a1 |
| Size | 2.6 KB |
| Checksum | sha256:adf504c41cb805eb547794171dc8893289a7f3e7b0e0d7d65c0446657c55c6a1 |
| Downloads | 1 |
| Version | Date | Status | Downloads | Size | Diff |
|---|---|---|---|---|---|
| 0.0.0-0c7146d | 08 Apr 2026 19:06:14 (UTC) | 1 | 2.6 KB | - |