moscot.datasets.zebrafish

moscot.datasets.zebrafish(path='~/.cache/moscot/zebrafish.h5ad', force_download=False, **kwargs)[source]

Lineage-traced scRNA-seq time-series dataset of Zebrafish heart regeneration [Hu et al., 2022].

Contains gene expression vectors, LINNAEUS [Spanjaard et al., 2018] reconstructed lineage trees, a low-dimensional embedding, and additional metadata.

Parameters:

  • path (Union[PathLike, str]) – Path where to save the file.

  • force_download (bool) – Whether to force-download the data.

  • kwargs (Any) – Keyword arguments for scanpy.read().

Return type:

Tuple[AnnData, Dict[str, DiGraph]]

Returns:

: Annotated data object and the lineage trees.