lazyslide.io.load_annotations

load_annotations(wsi, annotations=None, *, explode=True, in_bounds=False, join_with='tissues', join_to=None, json_flatten='classification', min_area=100.0, key_added='annotations')

Load the annotation file and add it to the WSIData

Parameters:

wsiWSIData

The WSIData object to work on.

annotationsstr, Path, GeoDataFrame

The path to the annotation file or the GeoDataFrame.

explodebool, default: True

Whether to explode the annotations.

in_boundsbool, default: False

Whether to move the annotations to the slide bounds.

join_withstr, List[str], default: ‘tissues’

The key to join the annotations with.

join_tostr, default: None

The key to join the annotations to.

json_flattenstr, default: “classification”

The column(s) to flatten the json data, if not exist, it will be ignored. “classification” is the default column for the QuPath annotations.

min_areafloat, default: 1e2

The minimum area of the annotation.

key_addedstr, default: ‘annotations’

The key to store the annotations.