pyXenium.contour.compare_contour_de

compare_contour_de(sdata, *, contour_key, groupby, case, reference, contour_query=None, cell_query=None, layer=None, genes=None, min_cells_per_contour=3, min_contours_per_group=2)

Compare contour groups with contour-level pseudobulk expression.

Cells are assigned to each contour by centroid intersection, expression is averaged within every eligible contour, and the requested case/reference contour groups are compared with Welch t-tests over those contour means.

Parameters:

• sdata (XeniumSlide)

• contour_key (str)

• groupby (str)

• case (str | Sequence[str])

• reference (str | Sequence[str])

• contour_query (str | None)

• cell_query (str | None)

• layer (str | None)

• genes (str | Sequence[str] | None)

• min_cells_per_contour (int)

• min_contours_per_group (int)

Return type:

DataFrame