nf-core/pypgx/preparedepthofcoverage @ 0.0.0-6c4ed3a
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 | 0.0.0-6c4ed3a |
|---|---|
| Commit ID | 6c4ed3a220310b905a1fc9d04f05be2e0837142b |
| Release Date | 23 Apr 2026 15:39:09 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Fpypgx%2Fpreparedepthofcoverage/0.0.0-6c4ed3a/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/pypgx/preparedepthofcoverage/blobs/sha256:a3ebcef4dee25b50839c110ef68d6335a0e0b375660700089e92055eb89442e1 |
| Size | 2.7 KB |
| Checksum | sha256:a3ebcef4dee25b50839c110ef68d6335a0e0b375660700089e92055eb89442e1 |
| Downloads | 3 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:39:09 (UTC) | 3 | 2.7 KB | |
| 0.0.0-3fc6d40 | 22 Apr 2026 15:28:00 (UTC) | 3 | 2.7 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 19:29:32 (UTC) | 3 | 2.6 KB |