spatialtis.hotspot

class spatialtis.hotspot(data, selected_types=None, search_level=3, quad=None, rect_side=None, pval=0.01, **kwargs)[source]

Getis-ord hotspot detection

Used to identify cells that cluster together.

Parameters

  • data (anndata._core.anndata.AnnData) – AnnData object to perform analysis

  • selected_types (Optional[Union[List, Tuple, pandas.core.series.Series, numpy.ndarray]]) – Select your interested cell types

  • search_level (int) – How deep the search level to reach

  • quad (Optional[Tuple[int, int]]) – A tuple (X, Y), Use a grid that is X * Y to tessellation your ROI

  • rect_size – {rect_size}

  • pval (float) – The p-value threshold to determine significance

  • **kwargs – Pass to spatialtis.abc.AnalysisBase

  • rect_side (Optional[Tuple[float, float]]) –

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