scanpy
K-Dense-AI/scientific-agent-skills
Scanpy is a comprehensive Python toolkit built on AnnData for analyzing single-cell RNA-seq datasets. It provides a complete, scalable workflow covering every stage of single-cell genomics analysis, including quality control (QC), normalization, dimensionality reduction (PCA, UMAP, t-SNE), cell clustering, marker gene identification, and cell type annotation. Ideal for researchers generating publication-quality single-cell visualizations and performing exploratory analysis.