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CellProfiler / tutorials

CellProfiler tutorial pipelines and images
https://tutorials.cellprofiler.org/
BSD 3-Clause "New" or "Revised" License
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Update Advanced Segmentation tutorial pipelines for CP4 #28

Closed pearlryder closed 3 years ago

pearlryder commented 3 years ago

Updated the AdvancedSegmentation tutorial pipelines to CP4 pipelines.

Adapted the segmentation settings in IdentifyPrimaryObjects and IdentifySecondaryObjects to improve nuclear and cell segmentations, respectively.

bethac07 commented 3 years ago

So in general this seems reasonable, but in my testing I think ID Secondary is going to be better with using the log transform option on the otsu. That will only be available in 4.0.7 (and there's a bug on mins and maxes on 4.0.7, so 4.0.8 is the first one where it will be truly usable). It's worth pulling this now, but we should try to remember to update this again once 4.0.8 is out.