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Add HD 95 metric #249

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merged 2 commits into from
Feb 4, 2024
Merged

Add HD 95 metric #249

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48e8ba3
Add HD 95 metric
pchlap Dec 20, 2023
34e2ebb
Update docstring
pchlap Dec 20, 2023
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13 changes: 6 additions & 7 deletions platipy/imaging/label/comparison.py
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Original file line number Diff line number Diff line change
Expand Up @@ -74,8 +74,8 @@ def compute_surface_dsc(label_a, label_b, tau=3.0):

def compute_surface_metrics(label_a, label_b, verbose=False):
"""Compute surface distance metrics between two labels. Surface metrics computed are:
hausdorffDistance, meanSurfaceDistance, medianSurfaceDistance, maximumSurfaceDistance,
sigmaSurfaceDistance, surfaceDSC
hausdorffDistance, hausdorffDistance95, meanSurfaceDistance, medianSurfaceDistance,
maximumSurfaceDistance, sigmaSurfaceDistance, surfaceDSC

Args:
label_a (sitk.Image): A mask to compare
Expand All @@ -95,8 +95,7 @@ def compute_surface_metrics(label_a, label_b, verbose=False):
std_sd_list = []
median_sd_list = []
num_points = []
for (la, lb) in ((label_a, label_b), (label_b, label_a)):

for la, lb in ((label_a, label_b), (label_b, label_a)):
label_intensity_stat = sitk.LabelIntensityStatisticsImageFilter()
reference_distance_map = sitk.Abs(
sitk.SignedMaurerDistanceMap(
Expand All @@ -118,6 +117,7 @@ def compute_surface_metrics(label_a, label_b, verbose=False):

mean_surf_dist = np.dot(mean_sd_list, num_points) / np.sum(num_points)
max_surf_dist = np.max(max_sd_list)
hd_95 = np.percentile(max_sd_list, 95)
std_surf_dist = np.sqrt(
np.dot(
num_points,
Expand All @@ -131,6 +131,7 @@ def compute_surface_metrics(label_a, label_b, verbose=False):

result = {}
result["hausdorffDistance"] = hd
result["hausdorffDistance95"] = hd_95
result["meanSurfaceDistance"] = mean_surf_dist
result["medianSurfaceDistance"] = median_surf_dist
result["maximumSurfaceDistance"] = max_surf_dist
Expand Down Expand Up @@ -294,8 +295,7 @@ def compute_metric_masd(label_a, label_b, auto_crop=True):

mean_sd_list = []
num_points = []
for (la, lb) in ((label_a, label_b), (label_b, label_a)):

for la, lb in ((label_a, label_b), (label_b, label_a)):
label_intensity_stat = sitk.LabelIntensityStatisticsImageFilter()
reference_distance_map = sitk.Abs(
sitk.SignedMaurerDistanceMap(
Expand Down Expand Up @@ -364,7 +364,6 @@ def compute_apl(label_ref, label_test, distance_threshold_mm=3):

# iterate over each slice
for i in range(n_slices):

if (
sitk.GetArrayViewFromImage(label_ref)[i].sum()
+ sitk.GetArrayViewFromImage(label_test)[i].sum()
Expand Down
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