{"action":"created","issue":{"url":"https://api.github.com/repos/dasv74/orientationj/issues/1","repository_url":"https://api.github.com/repos/dasv74/orientationj","labels_url":"https://api.github.com/repos/dasv74/orientationj/issues/1/labels{/name}","comments_url":"https://api.github.com/repos/dasv74/orientationj/issues/1/comments","events_url":"https://api.github.com/repos/dasv74/orientationj/issues/1/events","html_url":"https://github.com/dasv74/orientationj/issues/1","id":322609321,"number":1,"title":"Extension to 3D analysis","user":{"login":"franciscofritz","id":23002422,"avatar_url":"https://avatars3.githubusercontent.com/u/23002422?v=4","gravatar_id":"","url":"https://api.github.com/users/franciscofritz","html_url":"https://github.com/franciscofritz","followers_url":"https://api.github.com/users/franciscofritz/followers","following_url":"https://api.github.com/users/franciscofritz/following{/other_user}","gists_url":"https://api.github.com/users/franciscofritz/gists{/gist_id}","starred_url":"https://api.github.com/users/franciscofritz/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/franciscofritz/subscriptions","organizations_url":"https://api.github.com/users/franciscofritz/orgs","repos_url":"https://api.github.com/users/franciscofritz/repos","events_url":"https://api.github.com/users/franciscofritz/events{/privacy}","received_events_url":"https://api.github.com/users/franciscofritz/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":0,"created_at":"2018-05-13T16:46:49Z","updated_at":"2018-05-14T21:14:28Z","closed_at":null,"author_association":"NONE","body":"Hey!\r\n\r\nI have a small question. My colleague asked me to update the software in such way to analyse the orientation of microscopy data in a 3D way (instead to do the analysis slice by slice and get a 2D direction, this time get a 3D direction). As far as I can see in the code, it seems straightforward to \"update\" in a 3D fashion analysis, however it is still tricky to find the execution order of each command. Is it possible to get an idea how the program is being executed (a.k.a. code tree) in such way I can make the modifications? In case that I can modify and work with my colleague's data, Is it possible or allowed to update it here in GitHub? Or are you planning in a future to extend this analysis for 3D data? Best!"},"comment":{"url":"https://api.github.com/repos/dasv74/orientationj/issues/comments/388965110","html_url":"https://github.com/dasv74/orientationj/issues/1#issuecomment-388965110","issue_url":"https://api.github.com/repos/dasv74/orientationj/issues/1","id":388965110,"user":{"login":"dasv74","id":18427680,"avatar_url":"https://avatars0.githubusercontent.com/u/18427680?v=4","gravatar_id":"","url":"https://api.github.com/users/dasv74","html_url":"https://github.com/dasv74","followers_url":"https://api.github.com/users/dasv74/followers","following_url":"https://api.github.com/users/dasv74/following{/other_user}","gists_url":"https://api.github.com/users/dasv74/gists{/gist_id}","starred_url":"https://api.github.com/users/dasv74/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/dasv74/subscriptions","organizations_url":"https://api.github.com/users/dasv74/orgs","repos_url":"https://api.github.com/users/dasv74/repos","events_url":"https://api.github.com/users/dasv74/events{/privacy}","received_events_url":"https://api.github.com/users/dasv74/received_events","type":"User","site_admin":false},"created_at":"2018-05-14T21:14:28Z","updated_at":"2018-05-14T21:14:28Z","author_association":"OWNER","body":"Hello,\r\n\r\nVery interesting question! It is a long time ago that I'm thinking to the 3D extension. In 2010, we did it for a specific project to determine the bi-dimensional histogram of the 2 spherical angles from a 3D z-stack of images and it works!\r\nhttp://bigwww.epfl.ch/teaching/projects/abstracts/curdy/\r\n\r\nUnfortunately, this version of OrientationJ is not publicly available! \r\nMain reasons:\r\n- missing a nice integration in the graphical user interface of ImageJ, stack, hyperstack, ...\r\n- missing the computation with a non-isotropic voxel. Often the z-step is larger than the pixel size in x and in y. In OrientationJ, we are assuming that the pixel is square in x-y direction, it is not anymore true in 3D, the voxel is not a cube!\r\n- missing a cool HSB colour representation with the two angles.\r\n\r\nYou are welcome to extend OrientationJ in 3D.\r\n\r\nBest,"}}
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