Nextflow Modules
Showing module(s) with keyword "scRNA-seq"
| Module | Kind | Keywords | Description |
|---|---|---|---|
| cellgeni/hmetacells | Process | metacells hierarchical-clustering single-cell scRNA-seq scATAC-seq | Hierarchical metacell aggregation for single-cell genomics data. |
| cellgeni/scanpy/aggregate | Process | pseudobulk aggregation single-cell scRNA-seq scanpy | Pseudobulk aggregation of an AnnData object using scanpy.get.aggregate. |
| cellgeni/seacells | Process | metacells single-cell scRNA-seq scATAC-seq aggregation | SEACells aggregates single-cell profiles into metacells from scRNA-seq or scATAC-seq data. |
| nf-core/cellbender/merge | Process | single-cell scRNA-seq ambient RNA removal | Module to use CellBender to remove ambient RNA from single-cell RNA-seq data |
| nf-core/cellbender/removebackground | Process | single-cell scRNA-seq ambient RNA removal | Module to use CellBender to estimate ambient RNA from single-cell RNA-seq data |
| nf-core/irescue | Process | scRNA-seq transposons repeats | Quantification of transposable elements expression in scRNA-seq |
| nf-core/kallistobustools/count | Process | scRNA-seq count single-cell kallisto bustools | quantifies scRNA-seq data from fastq files using kb-python. |
| nf-core/kallistobustools/ref | Process | scRNA-seq count single-cell kallisto bustools index | index creation for kb count quantification of single-cell data. |
| nf-core/scvitools/scar | Process | single-cell scRNA-seq ambient RNA removal | Module to use scAR to remove ambient RNA from single-cell RNA-seq data |