To install the plugin download the DiversePathsJ_.jar file and put it in the plugins folder of ImageJ ( ImageJ/plugins/). Users are strongly encouraged to send bug reports, comments, praise and love letters at DiversePathsJ support address.įiji users: DiversePathsJ is available through Fiji's built-in updater using as update site URL. ImageJ and Fiji are both open-source and free and do not take more than a couple of minutes to install. The software provided here is a plugin for ImageJ or Fiji,Ī general purpose image-processing and image-analysis package. The use and exploitation of this technology. In addition, you undertake to include a citation to the associated papers whenever you present or publish results that are based on it.ĮPFL makes no warranties of any kind on this software and shall in no event be liable for damages of any kind in connection with You'll be free to use this software for research purposes, but you must not transmit and distribute it without our consent. Note that the SDK depends on the libraries contained in the following archive file. jar library and can be instantiated as shown in this code snippet. It can thus be used alone or integrated as part of larger image analysis pipelines.įor developers, we also provide the core processing units of DiversePathsJ as an SDK, without any user interface elements. The plugin only requires the specification of the source and target locations and of the dynamic programming potential map in addition to data-independent parameters (number of desired shortest paths and minimum amount of desired diversity between paths). It is implemented to leaves a lot of freedom in the definition of path diversity, such as imposing a minimal Euclidean distance between paths, or enforcing that the different paths accumulate a certain amount of diversity. The present software relies on a modified dynamic programming algorithm for finding a collection of diverse shortest paths in images between user-defined source and target locations. Hamprecht, " Diverse M-Best Solutions by Dynamic Programming," Proceedings of the Thirty-Ninth German Conference on Pattern Recognition (GCPR'17), Basel BS, Swiss Confederation, September 13-15, 2017, in press. Unser, " DiversePathsJ: Diverse Shortest Paths for Bioimage Analysis," Bioinformatics, in press. It is not linked to a specific biological problem and can be applied to a large variety of images. This software implements a dynamic programming approach for the general task of finding diverse shortest paths between two end-points. Written by Virginie Uhlmann at the Biomedical Image Group (BIG), EPFL, Switzerland
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