{"adoption": {"forks": 1087, "observed_at": "2026-08-28T04:08:23.968100+00:00", "stars": 3840}, "canonical_url": "https://ross.abutalabs.com/products/awesome-single-cell", "card": {"archived": false, "artifact_type": "learning-resource", "description": "Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.", "domain": ["bioinformatics", "data-science", "awesome-lists"], "enriched": true, "function": ["data-visualization", "developer-tools"], "health_score": 99, "homepage": null, "language": null, "license": "MIT", "license_family": "permissive", "maturity": "active", "member_repos": ["seandavi/awesome-single-cell"], "name": "seandavi/awesome-single-cell", "platform": ["cross-platform"], "pushed_at": "2026-08-21T19:10:24+00:00", "repo": "seandavi/awesome-single-cell", "stars": 3840, "tags": ["single-cell", "rna-seq", "atac-seq", "spatial-transcriptomics", "genomics", "curated-list"], "topics": ["rna-seq-data", "gene-expression", "scrna-seq-data", "bioinformatics", "awesome-list", "dimensionality-reduction", "atac-seq", "cell-differentiation", "python", "clustering", "cell-populations", "gene-expression-profiles", "rna-seq-experiments", "cell-clusters", "analysis-pipeline", "data-integration", "data-visualization", "single-cell", "spatial-transcriptomics"], "urls": [], "use_cases": ["find software for single-cell RNA-seq analysis", "discover tools for cell clustering and dimensionality reduction", "look up batch-effect removal methods for scRNA-seq", "find trajectory and pseudotime inference packages", "locate spatial transcriptomics analysis tools", "find tutorials and workflows for single-cell data analysis", "discover single-cell databases and web portals"], "what_it_is": "A community-curated awesome list of software packages, tutorials, databases, and data resources for single-cell omics analysis, covering RNA-seq, ATAC-seq, and spatial transcriptomics. It organizes tools by analysis task such as clustering, trajectory inference, batch correction, and cell type annotation.", "when_to_avoid": ["you need a ready-to-run analysis pipeline rather than a catalog of options", "you need software itself rather than links to it"], "when_to_choose": ["starting a single-cell analysis project and surveying the tool landscape", "comparing available packages for a specific single-cell task like doublet detection or data integration", "building a bioinformatics curriculum or reading list"]}, "data_as_of": "2026-08-30T08:39:29.467469+00:00", "members": [{"path": "/products/awesome-single-cell", "repo": "seandavi/awesome-single-cell", "role": "main", "score": 97}], "provenance": {"archived": {"kind": "observed", "observed_at": "2026-08-28T04:08:23.968100+00:00", "source": "github"}, "artifact_type": {"confidence": null, "enriched_at": "2026-08-29T18:26:14.209189+00:00", "kind": "inferred", "prompt_version": 1, "sources": [{"content_hash": "2369feb60b85ba2fb53fbe49731b42fd1de8c21f94f671d16e864b048a639473", "fetched_at": "2026-08-28T04:08:23.968100+00:00", "kind": "readme", "missing": false, "url": "https://github.com/seandavi/awesome-single-cell"}], "taxonomy_version": 1}, "description": {"kind": "observed", "observed_at": "2026-08-28T04:08:23.968100+00:00", "source": "github"}, "domain": {"confidence": null, "enriched_at": "2026-08-29T18:26:14.209189+00:00", "kind": "inferred", "prompt_version": 1, "sources": [{"content_hash": "2369feb60b85ba2fb53fbe49731b42fd1de8c21f94f671d16e864b048a639473", "fetched_at": "2026-08-28T04:08:23.968100+00:00", "kind": "readme", "missing": false, "url": "https://github.com/seandavi/awesome-single-cell"}], "taxonomy_version": 1}, "enriched": {"inputs": [], "kind": "computed", "method": "enrichment_status"}, "function": {"confidence": null, "enriched_at": "2026-08-29T18:26:14.209189+00:00", "kind": "inferred", "prompt_version": 1, "sources": [{"content_hash": "2369feb60b85ba2fb53fbe49731b42fd1de8c21f94f671d16e864b048a639473", "fetched_at": "2026-08-28T04:08:23.968100+00:00", "kind": "readme", "missing": false, "url": "https://github.com/seandavi/awesome-single-cell"}], "taxonomy_version": 1}, "health_score": {"inputs": ["days_since_push", "days_since_release", "archived"], "kind": "computed", "method": "health_v1"}, "homepage": {"kind": "observed", "observed_at": "2026-08-28T04:08:23.968100+00:00", "source": "github"}, "language": {"kind": "observed", "observed_at": "2026-08-28T04:08:23.968100+00:00", "source": "github"}, "license": {"kind": "observed", "observed_at": "2026-08-28T04:08:23.968100+00:00", "source": "github"}, "license_family": {"inputs": ["license"], "kind": "computed", "method": "license_family"}, "maturity": {"confidence": null, "enriched_at": "2026-08-29T18:26:14.209189+00:00", "kind": "inferred", "prompt_version": 1, "sources": [{"content_hash": "2369feb60b85ba2fb53fbe49731b42fd1de8c21f94f671d16e864b048a639473", "fetched_at": "2026-08-28T04:08:23.968100+00:00", "kind": "readme", "missing": false, "url": "https://github.com/seandavi/awesome-single-cell"}], "taxonomy_version": 1}, "member_repos": {"kind": "observed", "observed_at": "2026-08-28T04:08:23.968100+00:00", "source": "github"}, "name": {"kind": "observed", "observed_at": "2026-08-28T04:08:23.968100+00:00", "source": "github"}, "platform": {"confidence": null, "enriched_at": "2026-08-29T18:26:14.209189+00:00", "kind": "inferred", "prompt_version": 1, "sources": [{"content_hash": "2369feb60b85ba2fb53fbe49731b42fd1de8c21f94f671d16e864b048a639473", "fetched_at": "2026-08-28T04:08:23.968100+00:00", "kind": "readme", "missing": false, "url": "https://github.com/seandavi/awesome-single-cell"}], "taxonomy_version": 1}, "pushed_at": {"kind": "observed", "observed_at": "2026-08-28T04:08:23.968100+00:00", "source": "github"}, "repo": {"kind": "observed", "observed_at": "2026-08-28T04:08:23.968100+00:00", "source": "github"}, "stars": {"kind": "observed", "observed_at": "2026-08-28T04:08:23.968100+00:00", "source": "github"}, "tags": {"confidence": null, "enriched_at": "2026-08-29T18:26:14.209189+00:00", "kind": "inferred", "prompt_version": 1, "sources": [{"content_hash": "2369feb60b85ba2fb53fbe49731b42fd1de8c21f94f671d16e864b048a639473", "fetched_at": "2026-08-28T04:08:23.968100+00:00", "kind": "readme", "missing": false, "url": "https://github.com/seandavi/awesome-single-cell"}], "taxonomy_version": 1}, "topics": {"kind": "observed", "observed_at": "2026-08-28T04:08:23.968100+00:00", "source": "github"}, "urls": {"kind": "observed", "observed_at": "2026-08-28T04:08:23.968100+00:00", "source": "github"}, "use_cases": {"confidence": null, "enriched_at": "2026-08-29T18:26:14.209189+00:00", "kind": "inferred", "prompt_version": 1, "sources": [{"content_hash": "2369feb60b85ba2fb53fbe49731b42fd1de8c21f94f671d16e864b048a639473", "fetched_at": "2026-08-28T04:08:23.968100+00:00", "kind": "readme", "missing": false, "url": "https://github.com/seandavi/awesome-single-cell"}], "taxonomy_version": 1}, "what_it_is": {"confidence": null, "enriched_at": "2026-08-29T18:26:14.209189+00:00", "kind": "inferred", "prompt_version": 1, "sources": [{"content_hash": "2369feb60b85ba2fb53fbe49731b42fd1de8c21f94f671d16e864b048a639473", "fetched_at": "2026-08-28T04:08:23.968100+00:00", "kind": "readme", "missing": false, "url": "https://github.com/seandavi/awesome-single-cell"}], "taxonomy_version": 1}, "when_to_avoid": {"confidence": null, "enriched_at": "2026-08-29T18:26:14.209189+00:00", "kind": "inferred", "prompt_version": 1, "sources": [{"content_hash": "2369feb60b85ba2fb53fbe49731b42fd1de8c21f94f671d16e864b048a639473", "fetched_at": "2026-08-28T04:08:23.968100+00:00", "kind": "readme", "missing": false, "url": "https://github.com/seandavi/awesome-single-cell"}], "taxonomy_version": 1}, "when_to_choose": {"confidence": null, "enriched_at": "2026-08-29T18:26:14.209189+00:00", "kind": "inferred", "prompt_version": 1, "sources": [{"content_hash": "2369feb60b85ba2fb53fbe49731b42fd1de8c21f94f671d16e864b048a639473", "fetched_at": "2026-08-28T04:08:23.968100+00:00", "kind": "readme", "missing": false, "url": "https://github.com/seandavi/awesome-single-cell"}], "taxonomy_version": 1}}, "score": {"components": {"activity": 98, "longevity": 100, "rhythm": 95}, "computed_at": "2026-09-03T02:20:16.233290+00:00", "flags": [], "formula": "round(0.45*activity + 0.35*rhythm + 0.20*longevity); archived -> min(score, 10)", "inputs": {"age_days": 3717, "days_push": 12, "days_rel": 33, "gap_med": 30.0, "n_releases_24m": 7}, "score": 97, "version": 2}, "staleness": {"enrichment_outdated": false, "low_confidence": false, "scrape_days": 9, "stale_scrape": false}}