spateo.preprocessing.aggregate#
Aggregate buckets of AnnData object by binning.
Module Contents#
Functions#
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Aggregate cell-based AnnData by bin size. Cells within the same bin are aggregated together into one bucket. |
- spateo.preprocessing.aggregate.bin_adata(adata: anndata.AnnData, bin_size: int = 1, coords_key: str = 'spatial') anndata.AnnData[source]#
Aggregate cell-based AnnData by bin size. Cells within the same bin are aggregated together into one bucket.
- Parameters:
- adata
Input AnnData object
- bin_size
Shrinking factor to be applied to spatial coordinates; the size of this factor dictates the size of the regions that will be combined into one pseudo-cell (larger -> generally higher number of cells in each bin).
- coords_key
Key in .obsm where spatial coordinates are stored- bin coordinates will be used to update this array inplace.
- Returns:
New AnnData object generated by this process.
- Return type:
adata_binned