plate-rod-thinning
plate-rod-thinning provides topology-preserving trabecular bone plate/rod thinning and morphometry for HR-pQCT-style binary masks.
The package ports the original MATLAB plate/rod workflow into Python while keeping the core algorithm outside the Slicer Bone Imaging Toolbox. It produces 1-voxel skeleton topology labels, full-thickness plate/rod/junction labels, individual full-thickness component labels, and summary morphometry metrics.
Install
python -m pip install plate-rod-thinning
Prebuilt macOS wheels include the compiled C backend when available. The package also has a Python fallback, and on Apple platforms the Metal skeletonizer can be enabled with:
export PLATE_ROD_USE_METAL_FULL=1
Citation
If you use the plate/rod network connectivity or morphometry workflow, please cite:
Walle M, Yeritsyan D, Abbasian M, Oftadeh R, Müller R, Nazarian A. A graph model to describe the network connectivity of trabecular plates and rods. Front Bioeng Biotechnol. 2024 May 6;12:1384280. doi: 10.3389/fbioe.2024.1384280. PMID: 38770275; PMCID: PMC11103010.
Development
The compiled extension is opt-in for local source builds:
PLATE_ROD_BUILD_EXT=1 python -m pip install .
python -m pytest -q
1 maintainer
Metadata
1 maintainer
Release files for plate-rod-thinning 0.1.1
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | |
|---|---|---|---|
| plate_rod_thinning-0.1.1.tar.gz | 46.4 kB | Details |
Built distributions (wheels)
| File | Reset | |||
|---|---|---|---|---|
| plate_rod_thinning-0.1.1-cp313-cp313-macosx_11_0_arm64.whl | CPython 3.13 | CPython 3.13 | macOS 11.0+ ARM64 | Details |
| plate_rod_thinning-0.1.1-cp313-cp313-macosx_10_13_x86_64.whl | CPython 3.13 | CPython 3.13 | macOS 10.13+ x86-64 | Details |
| plate_rod_thinning-0.1.1-cp312-cp312-macosx_11_0_arm64.whl | CPython 3.12 | CPython 3.12 | macOS 11.0+ ARM64 | Details |
| plate_rod_thinning-0.1.1-cp312-cp312-macosx_10_13_x86_64.whl | CPython 3.12 | CPython 3.12 | macOS 10.13+ x86-64 | Details |
Total release size: 280.5 kB
Release files / plate_rod_thinning-0.1.1.tar.gz
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| Tags | CPython 3.12 macOS 10.13+ x86-64 |
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