Cellxgene Census

When to Use This Skill

This skill should be used when:

• Querying single-cell expression data by cell type, tissue, or disease
• Exploring available single-cell datasets and metadata
• Training machine learning models on single-cell data
• Performing large-scale cross-dataset analyses
• Integrating Census data with scanpy or other analysis frameworks
• Computing statistics across millions of cells
• Accessing pre-calculated embeddings or model predictions

Installation and Setup

Install the Census API:

For machine learning workflows, install additional dependencies:

1. Opening the Census

Always use the context manager to ensure proper resource cleanup:

import cellxgene_census