nf-core/scanpy/scrublet @ 0.0.0-0c7146d
Summary
Detect doublets in single-cell RNA-seq data using Scrublet via Scanpy
Get started
Add the following snippet to your workflow script to include this module.
include { SCANPY_SCRUBLET } from 'nf-core/scanpy/scrublet'
License
MIT License
Process
Name
|
SCANPY_SCRUBLET |
|---|
Input
2 channels
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test' ] |
|---|---|
h5ad
file
|
AnnData object in h5ad format *.{h5ad}
|
batch_col
string
|
Optional column name in adata.obs containing batch information If provided and contains multiple batches, will be used as batch_key parameter |
|---|
Output
3 channels
#1
h5ad
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test' ] |
|---|---|
*.h5ad
file
|
AnnData object with doublets removed *.h5ad
|
#2
versions
versions.yml
file
|
File containing software versions versions.yml
|
|---|
#3
predictions
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test' ] |
|---|---|
*.pkl
file
|
Pickle file containing doublet predictions *.pkl
|
| Tool | Description | Homepage |
|---|---|---|
| scanpy | Single-Cell Analysis in Python | https://scanpy.readthedocs.io |
| Version | 0.0.0-0c7146d |
|---|---|
| Commit ID | 6c4ed3a220310b905a1fc9d04f05be2e0837142b |
| Release Date | 08 Apr 2026 19:35:10 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Fscanpy%2Fscrublet/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/scanpy/scrublet/blobs/sha256:e3efbdb8994e6962a03f8b1086c5b3d3951a6d7763324a7c5a4918f57e090e03 |
| Size | 3.4 KB |
| Checksum | sha256:e3efbdb8994e6962a03f8b1086c5b3d3951a6d7763324a7c5a4918f57e090e03 |
| Downloads | 4 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:43:36 (UTC) | 4 | 3.4 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 19:35:10 (UTC) | 4 | 3.4 KB |