Accurate Fast Marching
Updated 14 Jan 2011
- The function MSFM2D/MSFM3D calculates the shortest distance from a list of points to all other pixels in an 2D or 3D image, using the Multistencil Fast Marching Method (MSFM). This method gives more accurate distances by using second order derivatives and cross neighbors.
- The function Skeleton will calculate an accurate skeleton (centerlines) of an object represented by an binary image / volume using the fast-marching distance transform.
- The function Shortestpath traces the shortest path from start point to source point using Euler or Runge Kutta 4 in the 2D or 3D distance map.
The 2D fast marching method is implemented in both Matlab-code and c-code. The c-code uses a custom build unsorted binary tree minimum search which out performs a normal binary sorted tree. The c-code is more than 500 times as fast as the matlab-code (compiled with the Microsoft Visual compiler).
We used two papers:
- J. Andreas Baerentzen "On the implementation of fast marching methods for 3D lattices"
- M. Sabry Hassouna et al. "Multistencils Fast Marching Methods: A Highly Accurate Solution to the Eikonal Equation on Cartesian Domains"
- R. van Uitert et al. "Subvoxel precise skeletons of volumetric data based on fast marching methods"
We compared the results of our implementation with the results in the paper:
- Normal fast marching 1th order, exact the same results.
- 2th order, significant smaller errors than in the paper.
- Multistencil 1th order, larger errors than in the paper
- Multistencil 2th order, significant worse results than published in the paper. (Note : Our results are in accordance to other existing implementations )
The last version of our code produces better result than in the paper or other literature. This is achieved by solving the polynomial roots using all the available information, as described by the comment of Olivier Roy below.
Compile the c-code with mex msfm2d.c; mex msfm3d.c; mex rk4.c;
Try the examples in the help of msfm2d, shortestpath and skeleton
Dirk-Jan Kroon (2023). Accurate Fast Marching (https://www.mathworks.com/matlabcentral/fileexchange/24531-accurate-fast-marching), MATLAB Central File Exchange. Retrieved .
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Inspired: Microscopy Image Browser (MIB), Microscopy Image Browser 2 (MIB2)
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Fixed Crash-bug, and solved bug when curvature and 2e order are enabled. Shortest-path optimized.
Centerline in 3D now works robust. More Accurate see comment of Olivier Roy.
Added skeletonize method for vessel centerline extraction
Linux Ubuntu Tested
Changed c-code comments // to /* */