particlespy

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At the moment, if particle_analysis is given a list of images, it will execute on one image at a time. It would make much more sense to fully parallelize this...

TomSlater

TomSlater

The rolling ball doesn't appear to work if the image is dark particles on a bright background. Inversion of the image intensity should be moved to be completed before the...

TomSlater

TomSlater

CameronGBell

pyqt as optional dependency

5

qt is a one of the largest dependencies (100 Mo) and can't be used remotely (cloud or cluster). Making this dependency optional would allow to use smaller docker image, etc.

ericpre

SegUI hangs if using qt backend

1

If you set the matplotlib backend to qt in ipython it cause the kernel to hang when closing SegUI.

TomSlater

Add a function to show segmented particle images/masks as montage

2

Plus some .pyc cache files and parameter.h5 file were manually chosen to be ignored because they cannot be ignored automatically on my PC.

YichiWang

napari

1

A couple of cool examples of napari, which is brilliant to display labels and annotate images. https://napari.org/tutorials/applications/annotate_segmentation https://napari.org/tutorials/gallery#kaggle-nuclei-segmentation-data https://napari.org/tutorials/gallery

ericpre

Create boundary_analysis.py

3

This is a standalone script to perform particle boundary analysis such as boundary curvature and find boundary pixels in clockwise sequence. Tom I am not sure how do you want...

YichiWang