scanpy
K-Dense-AI/scientific-agent-skillsStandard single-cell RNA-seq analysis pipeline. Use for QC, normalization, dimensionality reduction (PCA/UMAP/t-SNE), clustering, differential expression,…
Scores out of 100 · grade A+
2026-08-22Works
40% of the score100/100
- Loads cleanly: valid frontmatter, required fields present, no dangling references.
Maintained
25% of the score100/100
- no commits in the last 12 weeks
Adopted
20% of the score58/100
- 1,105 installs on skills.sh.
- 34,091 stars on the source repo.
Documented
15% of the score100/100
- 1,882 words with worked examples.
- Ships 24 bundled files.
Install
npx skills add K-Dense-AI/scientific-agent-skills/scanpyWhat it says it does
Standard single-cell RNA-seq analysis pipeline. Use for QC, normalization, dimensionality reduction (PCA/UMAP/t-SNE), clustering, differential expression, visualization, and converting R-friendly single-cell formats such as Seurat or SingleCellExperiment RDS files into h5ad for Scanpy. Best for exploratory scRNA-seq analysis with established workflows. For deep learning models use scvi-tools; for data format questions use anndata.
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