mantispy.ds.jump_crispr

mantispy.ds.jump_crispr(cache_dir=None, **kwargs)

The assembled JUMP CRISPR arm, 51,185 wells of knockouts.

cpg0016-jump-assembled, the v1.0a well-position-corrected and feature-selected parquet, and the largest dataset here at 180 MB. Metadata_JCP2022 identifies the perturbation. The cell counts are the ones jump-profiling-recipe regresses out of these profiles; their Cells_Count_Count feature was normalized with the rest and is no longer a count.

Parameters:

• cache_dir (str | Path | None (default: None)) – Where to keep the download. Defaults to mantispy.settings.cache_dir.

• kwargs (Any) – Passed to mantispy.io.read_profiles().

Return type:

AnnData

Returns:

Wells by features, indexed by plate and well, with Metadata_CellCount.

References

Chandrasekaran et al. [2023].