dict_to_store

dict_to_store(patch_output, scale_factor, class_dict=None, save_path=None)[source]

Converts (and optionally saves) output of TIAToolbox engines as AnnotationStore.

Parameters:

  • patch_output (dict) – A dictionary in the TIAToolbox Engines output format. Important keys are “probabilities”, “predictions”, “coordinates”, and “labels”.

  • scale_factor (tuple[int, int]) – The scale factor to use when loading the annotations. All coordinates will be multiplied by this factor to allow conversion of annotations saved at non-baseline resolution to baseline. Should be model_mpp/slide_mpp.

  • class_dict (dict) – Optional dictionary mapping class indices to class names.

  • save_path (str or Path) – Optional Output directory to save the Annotation Store results.

Returns:

An SQLiteStore containing Annotations for each patch or Path to file storing SQLiteStore containing Annotations for each patch.

Return type:

(SQLiteStore or Path)