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2 parents 433014e + ef5afeb commit 487803dCopy full SHA for 487803d
src/spatialdata_io/readers/visium_hd.py
@@ -346,7 +346,7 @@ def _get_bins(path_bins: Path) -> list[str]:
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# Integrate the segmentation data (skipped if segmentation files are not found)
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if cell_segmentation_files_exist:
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print("Found segmentation data. Incorporating cell_segmentations.")
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- cell_adata_hd = sc.read_10x_h5(COUNT_MATRIX_PATH)
+ cell_adata_hd = sc.read_10x_h5(COUNT_MATRIX_PATH, gex_only=False)
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cell_adata_hd.var_names_make_unique()
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cell_shapes_gdf = _extract_geometries_from_geojson(
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