Nextflow Modules
Showing module(s) with keyword "ambient"
| Module | Keywords | Description |
|---|---|---|
| nf-core/soupx | single-cell transcriptomics ambient | Estimation and removal of cell free mRNA contamination in droplet based single cell RNA-seq data. The filtered counts are preprocessed with Seurat (LogNormalize, PCA, kNN graph, clustering) to provide cluster assignments to SoupX, which then estimates per-cluster contamination and adjusts counts. The adjusted counts are written to the output H5AD as an `ambient` layer. |