def transform(self, I):
I = ut.standardize_brightness(I)
stain_matrix_source = get_stain_matrix(I)
source_concentrations = ut.get_concentrations(I, stain_matrix_source)
return (255 * np.exp(-1 * np.dot(
source_concentrations, self.stain_matrix_target).reshape(I.shape))
).astype(np.uint8)
def hematoxylin(self, I):
I = ut.standardize_brightness(I)
h, w, c = I.shape
stain_matrix_source = get_stain_matrix(I)
source_concentrations = ut.get_concentrations(I, stain_matrix_source)
H = source_concentrations[:, 0].reshape(h, w)
H = np.exp(-1 * H)
return H
def transform(self, I):
I = ut.standardize_brightness(I)
stain_matrix_source = get_stain_matrix(I)
source_concentrations = ut.get_concentrations(I, stain_matrix_source)
maxC_source = np.percentile(source_concentrations, 99, axis=0).reshape((1, 2))
maxC_target = np.percentile(self.target_concentrations, 99, axis=0).reshape((1, 2))
source_concentrations *= (maxC_target / maxC_source)
return (255 * np.exp(-1 * np.dot(source_concentrations, self.stain_matrix_target).reshape(I.shape))).astype(np.uint8)
def fit(self, target):
target = ut.standardize_brightness(target)
self.stain_matrix_target = get_stain_matrix(target)
self.target_concentrations = ut.get_concentrations(
target, self.stain_matrix_target)