Liftoff.bio illustration — cat databases

FreePublic Databases Single-Cell & Spatial

CZ CELLxGENE Census

Programmatic access to tens of millions of single cells

CZ CELLxGENE lets you explore and download standardized single-cell datasets. The Census API gives slice-and-query access to tens of millions of cells without downloading everything.

Example

1import cellxgene_census
2with cellxgene_census.open_soma() as census:
3    adata = cellxgene_census.get_anndata(
4        census, organism="Homo sapiens",
5        obs_value_filter="tissue_general == 'blood'",
6    )

Related tools

Liftoff.bio illustration — cat single cell

Open source

Single-Cell & Spatial

Scanpy

Scalable single-cell analysis in Python

Python library

Open source

Single-Cell & Spatial

AnnData

Annotated data matrices for single-cell at scale

Python library

Liftoff.bio illustration — post single cell

Free for academia

Single-Cell & Spatial

Arc State

A virtual cell model predicting perturbation responses

Python libraryModel weights