def find_normalization_params(pat_t2w, pat_gt, label):
# Create the normalization object and load the model
t2w_norm = RicianNormalization(T2WModality())
# Read the T2W
t2w_mod = T2WModality()
t2w_mod.read_data_from_path(pat_t2w)
# Read the GT
gt_mod = GTModality()
gt_mod.read_data_from_path(label, pat_gt)
# Find the normalization parameters
t2w_norm.fit(t2w_mod, ground_truth=gt_mod, cat=label[0])
return t2w_norm
def find_normalization_params(pat_dce, pat_gt, label, pat_model):
# Create the normalization object and load the model
dce_norm = StandardTimeNormalization(DCEModality())
dce_norm.load_model(pat_model)
# Read the DCE
dce_mod = DCEModality()
dce_mod.read_data_from_path(pat_dce)
# Read the GT
gt_mod = GTModality()
gt_mod.read_data_from_path(label, pat_gt)
# Find the normalization parameters
dce_norm.fit(dce_mod, ground_truth=gt_mod, cat=label[0])
return dce_norm
def find_normalization_params(pat_adc, pat_gt, label, pat_model):
# Create the normalization object and load the model
adc_norm = PiecewiseLinearNormalization(ADCModality())
adc_norm.load_model(pat_model)
# Read the ADC
adc_mod = ADCModality()
adc_mod.read_data_from_path(pat_adc)
# Read the GT
gt_mod = GTModality()
gt_mod.read_data_from_path(label, pat_gt)
# Find the normalization parameters
adc_norm.fit(adc_mod, ground_truth=gt_mod, cat=label[0])
return adc_norm
from protoclass.preprocessing import StandardTimeNormalization
# Define the path for the DCE
path_dce = '/data/prostate/experiments/Patient 383/DCE'
# Define the list of path for the GT
path_gt = ['/data/prostate/experiments/Patient 383/GT_inv/prostate']
# Define the associated list of label for the GT
label_gt = ['prostate']
# Read the DCE
dce_mod = DCEModality()
dce_mod.read_data_from_path(path_dce)
# Read the GT
gt_mod = GTModality()
gt_mod.read_data_from_path(label_gt, path_gt)
# Create the object to normalize the DCE data
dce_norm = StandardTimeNormalization(dce_mod)
# Fit the data to get the normalization parameters
dce_norm.partial_fit_model(dce_mod, ground_truth=gt_mod,
cat='prostate')
print dce_norm.model_
# Define the path for the DCE
path_dce = '/data/prostate/experiments/Patient 387/DCE'
# Define the list of path for the GT
path_gt = ['/data/prostate/experiments/Patient 387/GT_inv/prostate']
