Joint space parameter calculation

Joint space parameter calculation uses the joint space mask to calculate joint space volume, mean width, width standard deviation, minimum width, maximum width, asymmetry, and bone-on-bone contact.

Function¶

To calculate the joint space parameters, use the following function:

jsw_parameters(
    pad_image,
    dilated_js_mask,
    filename,
    output_path,
    js_mask,
    voxel_size,
    oversamp,
    skel,
    minimum)

Input settings¶

HR-pQCT

PCD-CT

µCT

pad_image: Padded binary image of the joint segmentation
dilated_js_mask: Dilated binary joint space mask
filename: Name used for the output file
output_path: Directory where the output file will be saved
js_mask: Binary joint space mask
voxel_size: Image voxel size. Default = 0.0607
oversamp: Enables oversampling during the width calculation. Default = True
skel: Enables skeletonization during the width calculation. Default = True
minimum: Minimum width value included in the calculation. Default = 0.0

Further information about the function and its inputs can be found here (tbd).

Examples and workflows¶

HR-pQCT

PCD-CT

µCT

Examples of how to use joint space parameter calculations:

Finger_Joint_Comparison.ipynb

Workflows that include joint space parameter calculations:

JSW analysis workflow

Citation¶

HR-pQCT

PCD-CT

µCT

We used the method from Hildebrand & Rüegsegger (1997) as implemented in ORMIR-XCT (Kuczynski et al. (2024)).

References¶

Hildebrand, T., & Rüegsegger, P. (1997). A new method for the model‐independent assessment of thickness in three‐dimensional images. Journal of Microscopy, 185(1), 67–75. 10.1046/j.1365-2818.1997.1340694.x
Kuczynski, M. T., Neeteson, N. J., Stok, K. S., Burghardt, A. J., Hernandez, M. A. E., Vicory, J., Tse, J. J., Durongbhan, P., Bonaretti, S., Wong, A. K. O., Boyd, S. K., & Manske, S. L. (2024). ORMIR_XCT: A Python package for high resolution peripheral quantitative computed tomography image processing. Journal of Open Source Software, 9(97), 6084. 10.21105/joss.06084