none: no cycle detection nor pruning is performed.In this sense, the initial plugin dialog offers 4 options: Since the 2 version of the code, the possible cycles or loops in the skeleton can be detected and pruned previous to the analysis. An extra output image will be displayed containing each skeleton labeled with its corresponding skeleton ID.
Show detailed info about the branches of each skeleton in the image.In this case, the shortest path will be displayed in a new window containing the skeleton in white and the shortest path in magenta. Calculate the largest shortest path of each skeleton using the APSP (all pairs shortest path).An application of this feature is described in Strahler Analysis. If selected, pruning will not be applied to end-points contained by the ROI. In this case, if a ROI was selected in the input image, another option is enabled: Exclude ROI from pruning.Prune any branch that ends in an end-point (by checking 'Prune ends'), as implemented by Michael Doube in BoneJ.Prune the possible loops in the skeleton (by choosing one of the pruning cycle methods).In the main dialog of the plugin the user can select some options to
Main dialog of the AnalyzeSkeleton plugin
