cellxgene-census

cellxgene-census is a Bioinformatics & life sciences skill for AI agents, published by K-Dense-AI in the scientific-agent-skills repository on GitHub. Skillspace rates cellxgene-census B (80/100) and it passed the safety scan; a judge model has also reviewed it.

Query the CZ CELLxGENE Census programmatically for versioned public single-cell and spatial transcriptomics data. Use when you need population-scale cell metadata, gene expression slices, Census summary counts, source H5AD URIs/downloads, embeddings, spatial Census data, or reference atlas comparisons across organisms, tissues, diseases, assays, and cell types. For analyzing your own local single-cell data use scanpy, anndata, or scvi-tools.

Grade
B
Quality
80 / 100
Safety
Passed
GitHub stars
44,723

Placed #5 of 6 in the judged category final for Bioinformatics & life sciences.

This rating describes the version of the repository we crawled; it may have changed since, so go by its current files.

View source on GitHubK-Dense-AI/scientific-agent-skills

Our review

Architecture
99 / 100
Maturity
Packaged: licensed, with a version or references
Security scan
No issues found
License
Not declared. Check the repository before reusing it.

Judge review

Placed #5 of 6 in the judged category final for Bioinformatics & life sciences.

  • Trigger8989
  • Instructions8888
  • Specificity8484
  • Safety9292
  • Disclosure7979
  • Maintenance8484
Inline best-practices (always filter is_primary_data, pin census_version, estimate query size before loading) make the core file directly useful, but only one reference file backs it and the 8 workflow patterns are described rather than shown.

Not checked yet

  • Category is a classifier prediction; no model has read this skill yet
  • No blind task eval yet
  • Scope (portable / vendor / repo-internal) not assessed; only the top of each category is read for scope
  • Sibling files (scripts, references) not fetched; security scan covers SKILL.md only

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