Skip to content

Loading raw Xenium data #97

@ekansh09

Description

@ekansh09

I would like to load a HEST object without pooling and without creating spots for Xenium data. Essentially, I'd like to work directly with the raw transcript data, with each cell as an individual observation.

From issue #79, I understand that this is possible by accessing the raw transcript data directly. However, doing so means I can't use the standard Scanpy functions (based on cells).

Is there currently a supported way to obtain a HEST object with AnnData object containing n_obs == num_cells instead of num_spots?

Metadata

Metadata

Assignees

No one assigned

    Labels

    No labels
    No labels

    Type

    No type

    Projects

    No projects

    Milestone

    No milestone

    Relationships

    None yet

    Development

    No branches or pull requests

    Issue actions