scanpy
Scanpy: Single-Cell Analysis
Overview
Scanpy is a scalable Python toolkit for analyzing single-cell RNA-seq data, built on AnnData. Apply this skill for complete single-cell workflows including quality control, normalization, dimensionality reduction, clustering, marker gene identification, visualization, and trajectory analysis.
In the bundled Vibe-Skills routing surface, this skill also absorbs the former AnnData and scVI/scANVI route surfaces. Use it for h5ad container handling and scverse latent-model planning when those tasks appear inside a single-cell workflow.
When to Use This Skill
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