misc¶

tiatoolbox . utils . misc

Miscellaneous small functions repeatedly used in tiatoolbox.

Functions

`add_from_dat`	Add annotations from a .dat file to an existing store.
`anns_from_hoverdict`	Helper function to create list of Annotation objects.
`assert_dtype_int`	Generate error if dtype is not int.
`contrast_enhancer`	Enhance contrast of the input image using intensity adjustment.
`dict_to_store`	Converts (and optionally saves) output of TIAToolbox engines as AnnotationStore.
`dict_to_zarr`	Saves the output of TIAToolbox engines to a zarr file.
`download_data`	Download data from a given URL to location.
`get_bounding_box`	Get bounding box coordinate information.
`get_luminosity_tissue_mask`	Get tissue mask based on the luminosity of the input image.
`grab_files_from_dir`	Grab file paths specified by file extensions.
`imread`	Read an image as numpy array.
`imwrite`	Write numpy array to an image.
`load_stain_matrix`	Load a stain matrix as a numpy array.
`make_default_dict`	Helper function to create a default typedict if none is provided.
`make_valid_poly`	Helper function to make a valid polygon.
`model_to`	Transfers model to cpu/gpu.
`parse_cv2_interpolaton`	Convert a string to a OpenCV (cv2) interpolation enum.
`ppu2mpp`	Convert pixels per unit (ppu) to microns per pixel (mpp).
`read_locations`	Read annotations as pandas DataFrame.
`save_as_json`	Save data to a json file.
`save_yaml`	Save dictionary as yaml.
`select_cv2_interpolation`	Return appropriate interpolation method for opencv based image resize.
`select_device`	Selects the appropriate device as requested.
`split_path_name_ext`	Split path of a file to directory path, file name and extensions.
`store_from_dat`	Load annotations from a hovernet-style .dat file.
`string_to_tuple`	Splits input string to tuple at ','.
`unzip_data`	Extract data from zip file.