Nextflow Modules
Showing module(s) with keyword "anndata"
| Module | Kind | Keywords | Description |
|---|---|---|---|
| cellgeni/anndata/concat | Process | concatenation single-cell anndata | In-memory concatenation of AnnData objects using anndata.concat. |
| cellgeni/anndata/concatondisk | Process | concatenation single-cell anndata | Memory-efficient on-disk concatenation of AnnData objects using anndata.experimental.concat_on_disk. |
| nf-core/anndata/barcodes | Process | single-cell barcodes anndata subsetting transcriptomics | Module to subset AnnData object to cells with matching barcodes from the csv file |
| nf-core/anndata/convert | Process | single-cell anndata conversion | Convert an AnnData H5AD file to Seurat and SingleCellExperiment RDS objects |
| nf-core/anndata/getsize | Process | anndata single-cell scanpy | Get the size (n_cells or n_genes) of an anndata object stored as a h5ad file |
| nf-core/h5ad_removebackground_barcodes_cellbender_anndata | Workflow | scdownstream cellbender anndata | Use cellbender for empty droplet removal |
| nf-core/metaspace/converter | Process | anndata spatialdata metabolomics mass spectrometry imaging | Export METASPACE datasets to AnnData and SpatialData objects |
| nf-core/scanpy/hashsolo | Process | anndata single-cell hashing demultiplexing scanpy | Probabilistic demultiplexing of cell hashing data |