VahadaneExtractor#
- class VahadaneExtractor(luminosity_threshold=0.8, regularizer=0.1)[source]#
Vahadane stain extractor.
Get the stain matrix as defined in:
Vahadane, Abhishek, et al. “Structure-preserving color normalization and sparse stain separation for histological images.” IEEE transactions on medical imaging 35.8 (2016): 1962-1971.
This class contains code inspired by StainTools [https://github.com/Peter554/StainTools] written by Peter Byfield.
- Parameters:
Examples
>>> from tiatoolbox.tools.stainextract import VahadaneExtractor >>> from tiatoolbox.utils.misc import imread >>> extractor = VahadaneExtractor() >>> img = imread('path/to/image') >>> stain_matrix = extractor.get_stain_matrix(img)
Methods
Stain matrix estimation.
- get_stain_matrix(img)[source]#
Stain matrix estimation.
- Parameters:
img (
numpy.ndarray
) – Input image used for stain matrix estimation- Returns:
Estimated stain matrix.
- Return type: