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 | 6c4ed3a220310b905a1fc9d04f05be2e0837142b |
| Release Date | 08 Apr 2026 18:50:41 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Fcellbender%2Fmerge/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/cellbender/merge/blobs/sha256:899ec67466ba57cd279f79d047b16efa991773be3fd6a4c075bfa406bb44d2a8 |
| Size | 3.2 KB |
| Checksum | sha256:899ec67466ba57cd279f79d047b16efa991773be3fd6a4c075bfa406bb44d2a8 |
| Downloads | 3 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:08:44 (UTC) | 3 | 3.2 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 18:50:41 (UTC) | 3 | 3.2 KB |