nf-core/mcstaging/phenoimager2mc @ 0.0.0-f484e07
Summary
Staging module for MCMICRO transforming PhenoImager .tif files into stacked and normalized ome-tif files per cycle, compatible as ASHLAR input.
Get started
Add the following snippet to your workflow script to include this module.
include { MCSTAGING_PHENOIMAGER2MC } from 'nf-core/mcstaging/phenoimager2mc'
License
MIT License
Process
Name
|
MCSTAGING_PHENOIMAGER2MC |
|---|
Input
1 channel
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. |
|---|---|
tiles
list
|
Folder or list with .tif files of one cycle from PhenoImager |
Output
2 channels
#1
tif
tuple
meta
map
|
Groovy Map containing sample information e.g. |
|---|---|
*.tif
file
|
One output .tif file containing concatenated tiles of the cycle. *.{tif,tiff}
|
#2
versions_phenoimager2mc
tuple
${task.process}
string
|
The name of the process |
|---|---|
phenoimager2mc
string
|
The name of the tool |
python /phenoimager2mc/scripts/phenoimager2mc.py --version | sed "s/v//g"
eval
|
The expression to obtain the version of the tool |
| Tool | Description | Homepage |
|---|---|---|
| mcstaging | Staging modules for MCMICRO | https://github.com/SchapiroLabor/phenoimager2mc |
| Version | 0.0.0-f484e07 |
|---|---|
| Commit ID | f484e078bd49a19fceca5c54a09c585e518784c2 |
| Release Date | 17 Apr 2026 15:00:08 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Fmcstaging%2Fphenoimager2mc/0.0.0-f484e07/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/mcstaging/phenoimager2mc/blobs/sha256:71c2ac085bb4d017572ef9123cfc753ccd99b1866d339f0957d7fd33a2021aca |
| Size | 2.5 KB |
| Checksum | sha256:71c2ac085bb4d017572ef9123cfc753ccd99b1866d339f0957d7fd33a2021aca |
| Downloads | 3 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-f484e07 | 17 Apr 2026 15:00:08 (UTC) | 3 | 2.5 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 19:16:36 (UTC) | 4 | 2.4 KB |