singlecell-portal

Installation
SKILL.md

Source: https://github.com/aipoch/medical-research-skills

When to Use

  • You need to discover relevant public single-cell studies by filtering on organism (e.g., human/mouse) and tissue (e.g., lung/brain).
  • You want to quickly retrieve study-level metadata (e.g., study name, accession, cell counts) for downstream curation or reporting.
  • You are building a script or tool that needs no authentication and should work reliably on Windows with minimal setup.
  • You want to inspect available filter facets (what tissues/diseases/cell types exist in the index) before constructing queries.
  • You need a lightweight way to validate that a study exists and fetch its details by accession.

Key Features

  • Direct REST access to the official Single Cell Portal API (/single_cell/api/v1/*)
  • No API key required (public endpoints)
  • Faceted search for studies (organism, tissue, disease, cell type, etc.)
  • Retrieve facet dictionaries to build valid filters
  • Retrieve study details by accession
  • Minimal dependency footprint (only requests)
  • Windows-friendly behavior (optional SSL verification disablement for certificate issues)
Installs
1
GitHub Stars
2.0K
First Seen
Sep 23, 2026
Security Audits