A MATLAB toolbox for three-dimensional reconstruction and analysis of MUscle SHape and ARchitecture.
- Establish point-to-point correspondence on surfaces and inside volumes through non-rigid registration of distance maps.
- Reconstruction of group-averaged muscle shape and muscle fibre orientations from magnetic resonance imaging and diffusion tensor imaging data.
- Includes code for averaging and interpolating diffusion tensors in the log-Euclidean domain
- Statistical analysis of local changes in shape and fibre orientations.
- Visualization of changes in shape and fibre orientations.
- Install Matlab (developed and tested in version R2019b)
- Add the MUSHAR-toolbox to the Matlab path.
The following software tools should be installed and made available on the command line:
- Shapeworks (tested in version 6.2.1 - older versions may not be compatible)
- Elastix (developed and tested in version 4.7)
- Convert3D
- Run the demo scripts to guide you through the main steps.
- Modify the scripts to set up your own analysis.
Please cite the following paper when using this toolbox:
Bolsterlee, B., 2022. A new framework for analysis of three-dimensional shape and architecture of human skeletal muscles from in vivo imaging data. Journal of Applied Physiology 132, p712-725. link
(Or read the preprint here.)