bio-single-cell-clustering - Single-Cell RNA-Seq Clustering Analysis
Perform dimensionality reduction and clustering on single-cell RNA-seq data using Seurat or Scanpy
Tags
Updated: 2026-03-20Capabilities
Typical Inputs
Typical Outputs
What this skill does
- Run PCA
- Compute neighbors
- Run Leiden clustering
- Run Louvain clustering
- Generate UMAP embeddings
- Generate tSNE embeddings
- Compute PAGA
Inputs
- Single-cell RNA-seq data
- AnnData object
- Seurat object
- n_pcs
- n_neighbors
- resolution
Outputs
- Cluster labels
- PCA coordinates
- UMAP coordinates
- tSNE coordinates
- Cluster plots
Requirements
- R with Seurat
- Python with Scanpy