nf-core/basicpy @ 0.0.0-0c7146d
Summary
BaSiCPy is a python package for background and shading correction of optical microscopy images. It is developed based on the Matlab version of BaSiC tool with major improvements in the algorithm.
Get started
Add the following snippet to your workflow script to include this module.
include { BASICPY } from 'nf-core/basicpy'
License
MIT License
Process
Name
|
BASICPY |
|---|
Input
1 channel
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test' ] |
|---|---|
image
file
|
BioFormats-compatible image file to be used for dark and flat field illumination correction *.{ome.tiff,ome.tif,rcpnl,btf,nd2,tiff,tif,czi}
|
Output
2 channels
#1
profiles
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test' ] |
|---|---|
*-dfp.ome.tif
file
|
OME-TIFF fields for dark field illumination correction *.{ome.tif}
|
*-ffp.ome.tif
file
|
OME-TIFF fields for flat field illumination correction *.{ome.tif}
|
#2
versions_basicpy
tuple
${task.process}
string
|
The name of the process |
|---|---|
basicpy
string
|
The name of the tool |
1.2.0
string
|
The expression to obtain the version of the tool |
| Tool | Description | Homepage |
|---|---|---|
| basicpy | BaSiCPy is a python package for background and shading correction of optical microscopy images. It is developed based on the Matlab version of BaSiC tool with major improvements in the algorithm. | https://github.com/peng-lab/BaSiCPy |
| Version | 0.0.0-0c7146d |
|---|---|
| Commit ID | 0c7146d85582628b5d1034504702fa808632b1af |
| Release Date | 08 Apr 2026 18:45:18 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Fbasicpy/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/basicpy/blobs/sha256:705b93ba9292ce214be652b341310ac3661490804b54b13d4dcc2621e5105aa8 |
| Size | 2.3 KB |
| Checksum | sha256:705b93ba9292ce214be652b341310ac3661490804b54b13d4dcc2621e5105aa8 |
| Downloads | 4 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-0c7146d | 08 Apr 2026 18:45:18 (UTC) | 4 | 2.3 KB |