Tools related to skeletonization of objects. The codes requires the ITK library to work and CMake to build.

• Create a build directory for compilation

$ mkdir build

• Set the ITK_DIR variable inside the CMakeLists.txt. The exact path will depend on the location where ITK is installed on your machine. Run following command (with appropriate path/to/ITK) to set the variable.

$sed -i '10s/.*/set(ITK_DIR \/path\/to\/ITK)/' CMakeLists.txt

• Change into the build directory and generate make files using cmake

$ cd build
$ cmake -DCMAKE_BUILD_TYPE=Release ..

• Compile using make

$ make -j2

If all goes well you should now have skeltools executable insed the build folder.

To compute (boundary distance weighted) medial curve for dinosaur sample image run

$ skeltools -priority distance -curve -input data/dinosaur.tif -smooth 0.2  -fillholes -outputFolder results

If everything runs without errors you should see dinosaur_distance_curve.tif inside results folder.

To compute medial surface for dinosaur sample image run

$ skeltools -priority distance -surface -input data/dinosaur.tif -smooth 0.1  -fillholes -output results/dino_surface.tif

The output of the above command should be the medial surface dino_surface.tif inside the results folder.

MapToBoundaryImageFilter can be used to map features (for example object width) from medial surface to the object boundary. Example map-medial-thickness-to-boundary.cpp computes object width weighted medial skeleton of `dinosaur.tif' and maps it back to the boundary.