{"slug":"mims-harvard-tooluniverse-single-cell","source_name":"mims-harvard/tooluniverse-single-cell","name":"Mims Harvard/Tooluniverse Single Cell","description":"Single-cell RNA-seq analysis with scanpy/anndata — h5ad data loading, scRNA-seq quality control and QC gating (n_genes_by_counts, total_counts, mitochondrial percent / pct_counts_mt, pct_counts_ribo, doublet detection with Scrublet/scDblFinder, ambient RNA / SoupX awareness, empty-droplet filtering, MAD-based thresholds), normalization, dimensionality reduction (PCA, UMAP, t-SNE), clustering (Leiden, Louvain), marker gene identification, cell-type annotation, pseudotime/trajectory analysis. Use ","version":1,"lift":{"pass_rate_delta_pts":0,"pass_rate_pct":68.2,"total_cases":22,"passed_cases":15,"tokens_delta_pct":328.4,"turns_delta_pct":0,"verdict":"mixed","benchmark_model":"gemini-3.6-flash","grading_method":"judged","completed_at":"2026-08-06T15:08:28.294088+00:00"},"skill_score":null,"benchmark_models":[{"model":"gemini-3.6-flash","headline":true,"delta_pts":0,"with_pass_pct":68.2,"without_pass_pct":68.2,"tokens_delta_pct":328.4,"turns_delta_pct":0,"total_cases":22,"cases_aggregated":19,"verdict":"mixed","never_hurt":false,"completed_at":"2026-08-06T15:08:28.294088+00:00","run_id":"9b598157-35e0-4a4e-ac88-d4081c241865","version_number":1,"is_latest_version":true,"gate":null}],"trust":{"skill_safety":"passed","safety_status":"clean","intent_verdict":"safe","content_status":"clean","indexable":true},"license":"Apache-2.0","install_count":0,"manifest_hash":"b0b6937cc7e2fa8985ddb02b96db4d0b9d6e2e888c8f453259e75c8c982b3569","raw_url":"https://app.decimal.ai/s/mims-harvard-tooluniverse-single-cell/SKILL.md","scorecard_url":"https://app.decimal.ai/skills/mims-harvard-tooluniverse-single-cell"}