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Release of some new MIJ-related tools

Posted by ericbarnhill-2 on Jun 02, 2015; 11:23am
URL: http://imagej.273.s1.nabble.com/Release-of-some-new-MIJ-related-tools-tp5013018.html

I have released a few small tools for Matlab <-> IJ integration:


Selection_To_Indices and Indices_To_Selection are PlugInFilters. The first converts an ImageJ ROI to a vector of Matlab indices for the same image. The second converts a Matlab vector of indices to an ImageJ ROI. 


They are best used through two matlab scripts I have included, roi_to_vector.m and vector_to_roi.m (though technically, the PlugInFilters could also be used standalone through the clipboard).



The principal disadvantage with vector_to_roi.m is that the Matlab vector is a point cloud, and consequently rendered as a polygon with as many lines as points when converted to an ROI. The problem of converting point cloud to polygon appears nontrivial, however if anyone knows of a plugin or other algorithm that does a good job converting point clouds to polygons, I will be happy to incorporate it in the next push.


Finally, I have also added openImage.m, a script which automatically opens a Matlab object of any dimensions >=2 in MIJ.


I have migrated my IJ Toolkit over to GitHub at the address:


https://github.com/ericbarnhill/barnhill_ij_toolkit



The .m scripts are in the matlab folder, the .jar is in the dist folder, and .java and .class files are in src and bin where expected. 


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