possible to run Potts Segmentation on stacks / multiple images?

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  • Stefan Fischer

    Hi all,

    I was testing the Plugin “Potts Segmentation” today and found it quite valuable for one of my projects. Everything works fine so far on single images, but I need to run it on multiple images or on a image stack.  If I run it on a tiff stack, it only takes the first slice of the stack. The plugin is not included in the blocks in the Protocols editor, thus I can not loop it through a folder. Any ideas on how to get it run on multiple images?

    Thanks for your help,

    Stefan

     

     

    Stephane Dallongeville

    Hi Stefan,

    This plugin has been developed by EPFL group, you may try to reach the original author from the plugin page to see if he can help:

    Potts Segmentation

    Best,

    – Stephane

    Stefan Fischer

    Hi Stephane,

    thanks for your answer, I did exactly that in parallel. I just wanted to make sure that I am not missing a possibility in ICY and will post any information / solution that I receive from the EPFL group back into this post here to make it visible for everybody.

    Best,

    Stefan

    Stephane Dallongeville

    Thanks, that would be really useful indeed !

    Best,

    – Stephane

    Stefan Fischer

    Hi all,

    I now received the answer from the author of the plugin that a change within the plugin to support image stacks (or multiple images) would require a change in the core of the procedure, which would be a quite demanding task. The author therefore proposed to use the plugin as is instead and loop it through a folder of images using the protocols editor. The question would then only be how can it be made available in the blocks (where it is not yet to be found)? I was told that this is not controlled by the plugin developers, but centrally by Icy.

    Any ideas?

    Best,

    Stefan

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