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@timtreis asked:
> just wanted to follow up on the segmentation of JUMP. We’re running a small study right now to identify the optimal CellPose parameters for the U2OS cells and would then segment …
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Like to know https://drive.google.com/file/d/1d_ypVYTsXoMrTVJaEfVRGS5CfLkxyViK/view?usp=sharing is trained on which dataset?
Is it https://warwick.ac.uk/fac/cross_fac/tia/data/nuclick/?
Under this…
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The Expansion Microscopy Pipeline uses a filter to mask pixels that are ineligible for spot finding. This filter:
1. Matches the intensity distribution of each channel in each round
2. Averages t…
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Hi,
I am working with Xenium data from the "transcripts/" folder and have encountered an issue. It seems that many of the entries, like the "TENX122" dataset, are missing key information such as the …
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Hi there, and thanks for your support.
While working on [a different project](https://github.com/fractal-analytics-platform/fractal), with @mfranzon and @jluethi we noticed an unexpected increase o…
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We used this transformation in a paper in preparation, it would be great to add this functionality to pycytominer to enable all future users access!
cc @jatinarora-upmc @shntnu
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Hi, I'm using the `StarDist` library for histological image segmentation in WSI format using the pre-trained model `2D_versatile_he.` The model construction and segmentation process are running correc…
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If the user calculates Max Intensity Projection on every channel for every FOV, along with maybe some segmentation results, what would be the best way to store them in the new version of zarr store?
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I've proposed a solution to this issue in a pull request #40 .
The [NMS implementation](https://github.com/mpicbg-csbd/stardist/blob/f8e63dc3fe1c662b4ee71b2cc54d01728b8bd6a5/stardist/lib/stardist3d…