nf-core/cellbender/merge @ 0.0.0-0c7146d
Summary
Module to use CellBender to remove ambient RNA from single-cell RNA-seq data
Get started
Add the following snippet to your workflow script to include this module.
include { CELLBENDER_MERGE } from 'nf-core/cellbender/merge'
License
MIT License
Process
Name
|
CELLBENDER_MERGE |
|---|
Input
2 channels
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test' ] |
|---|---|
filtered
file
|
AnnData file containing filtered data (without empty droplets) *.h5ad
|
unfiltered
file
|
AnnData file containing unfiltered data (with empty droplets) *.h5ad
|
cellbender_h5
file
|
CellBender h5 file containing ambient RNA estimates *.h5
|
output_layer_name
string
|
The name of the layer to store counts |
|---|
Output
2 channels
#1
h5ad
tuple
meta
file
|
AnnData file containing decontaminated counts as *.h5ad
|
|---|---|
${prefix}.h5ad
file
|
AnnData file containing decontaminated counts as *.h5ad
|
#2
versions_cellbender
versions.yml
file
|
File containing software version versions.yml
|
|---|
| Tool | Description | Homepage |
|---|---|---|
| cellbender | CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data. | n/a |
| Version | 0.0.0-0c7146d |
|---|---|
| Commit ID | 135d883a43b1a2324b4112cd270cf22e20835533 |
| Release Date | 08 Apr 2026 18:29:35 (UTC) |
| Download URL | https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fcellbender%2Fmerge/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/cellbender/merge/blobs/sha256:7c10863ab06eb44c8154b7d16bed3f31d7366b93d0e5b19cc03fa10c82779939 |
| Size | 3.2 KB |
| Checksum | sha256:7c10863ab06eb44c8154b7d16bed3f31d7366b93d0e5b19cc03fa10c82779939 |
| Downloads | 1 |
| Version | Date | Status | Downloads | Size | Diff |
|---|---|---|---|---|---|
| 0.0.0-0c7146d | 08 Apr 2026 18:29:35 (UTC) | 1 | 3.2 KB | - |