nf-core/xeniumranger/rename @ 0.0.0-3fc6d40
Summary
The xeniumranger rename module allows you to change the sample region_name and cassette_name throughout all the Xenium Onboard Analysis output files that contain this information.
Get started
Add the following snippet to your workflow script to include this module.
include { XENIUMRANGER_RENAME } from 'nf-core/xeniumranger/rename'
License
MIT License
Process
Name
|
XENIUMRANGER_RENAME |
|---|
Input
1 channel
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test' ] |
|---|---|
xenium_bundle
directory
|
Path to the xenium output bundle generated by the Xenium Onboard Analysis pipeline |
region_name
string
|
New region name |
cassette_name
string
|
New cassette name |
Output
2 channels
#1
outs
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test' ] |
|---|---|
${prefix}
directory
|
Directory containing the output xenium bundle of Xenium Ranger ${prefix}
|
#2
versions_xeniumranger
tuple
${task.process}
string
|
The process the versions were collected from |
|---|---|
xeniumranger
string
|
The tool name |
xeniumranger -V | sed -e 's/.*xenium-//'
string
|
The command used to generate the version of the tool |
| Tool | Description | Homepage |
|---|---|---|
| xeniumranger | Xenium Ranger is a set of analysis pipelines that process Xenium In Situ Gene Expression data to relabel, resegment, or import new segmentation results from community-developed tools. Xenium Ranger provides flexible off-instrument reanalysis of Xenium In Situ data. Relabel transcripts, resegment cells with the latest 10x segmentation algorithms, or import your own segmentation data to assign transcripts to cells. | https://www.10xgenomics.com/support/software/xenium-ranger/latest |
| Version | 0.0.0-3fc6d40 |
|---|---|
| Commit ID | 3fc6d40d163d89ae44d40a00b9017d5a9df5170e |
| Release Date | 22 Apr 2026 15:37:04 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Fxeniumranger%2Frename/0.0.0-3fc6d40/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/xeniumranger/rename/blobs/sha256:03930acc19081c4c9a8389ac2cfefa80774acd4adb7da51e9245f03921e43db4 |
| Size | 2.7 KB |
| Checksum | sha256:03930acc19081c4c9a8389ac2cfefa80774acd4adb7da51e9245f03921e43db4 |
| Downloads | 3 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-3fc6d40 | 22 Apr 2026 15:37:04 (UTC) | 3 | 2.7 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 19:48:11 (UTC) | 3 | 2.7 KB |