Directory / Scientific Agent Skills (K-Dense) / cellxgene-census

cellxgene-census

Queries 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.
Description from the SKILL.md front matter.

Install

GitHub CLI v2.90+ (Copilot by default)

gh skill install K-Dense-AI/scientific-agent-skills cellxgene-census

For Claude Code

gh skill install K-Dense-AI/scientific-agent-skills cellxgene-census --agent claude-code

For Codex

gh skill install K-Dense-AI/scientific-agent-skills cellxgene-census --agent codex

Commands follow each host's documentation (Any Agent Skills host (Claude Code, Codex, Cursor, Gemini CLI, Copilot…) docs). gh skill needs GitHub CLI 2.90 or later and is in public preview.

Listed from K-Dense Inc.'s catalog, not reviewed by us. Read the source before installing.

Catalog: Scientific Agent Skills (K-Dense)
Author: K-Dense Inc.
Source code: K-Dense-AI/scientific-agent-skills
License: MIT
Repository stars: 52,795 for K-Dense-AI/scientific-agent-skills (the whole catalog repo)
Version: 1.5
Added to catalog: Not tracked for this source
Last change: 2026-10-19 (last push to the repo)

What it contains

Skills: 1

Similar in Science, research & learning

13c-metabolic-flux (K-Dense science skill)
adaptyv (K-Dense science skill)
aeon (K-Dense science skill)
alphagenome (K-Dense science skill)
analytical-method-validation (K-Dense science skill)
anndata (K-Dense science skill)