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Hello,
I am trying to remove the segmentation head and add some more layers before adding segmentation head to my model.
But whenever I pass my encoder output to the decoder I keep getting this Er…
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Hi,
I want to improve the results I'm getting from Baysor by using prior segmentation. I have run CellPose on the DAPI channel and got both a label image as well as a CSV with the X, Y and Z posit…
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I don't get how to run segmentation with your scripts.
How can the model know what t osegment if we don'T provide any examples of image/segmentation pairs?
Do I need first to finetune/train on my da…
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We need some training data to enable automatic cell segmentation
1) Cancer cells from Aki
2) Cells from @andimi
3) Axons from @rg314
This can either be a polygon or masked image.
rg314 updated
3 years ago
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Thanks for this amazing tool!
## Description
I have an sdata object with more than one image (MERSCOPE data with 7 z slices), and I used Baysor trough the sopa pipeline for segmentation. When run…
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## 🐛 Bug
KeyError: 'extra_metadata' when running 'setup_puncta_analysis.jpynb'
## To Reproduce
Steps to reproduce the behavior:
1. Install punctatols via conda create -n python=3.8 (packa…
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People who work in cell analysis have reported to me in a private conversation that they achieve very high using EfficientNet by Google as the network architecture. Additionally, the network uses very…
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When running proseg on Xenium data and following the Xenium Explorer tutorial, I get a high fraction of cells empty as reported by the xeniumranger QC report:
> High fraction of cells empty | 18.2% |…
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**Seg fault**
When executing twice in a row the function get_symmetry, I get a segmentation fault
**To Reproduce**
Steps to reproduce the behavior:
1. Start Julia REPL
2. Run
```julia
julia>…
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# U-Net Hela Cell Segmentation
Bioimage.io -- an AI model repository for deep learning.
[https://bioimage.io/?id=UNet2DHelaSegmentation&type=model](https://bioimage.io/?id=UNet2DHelaSegmentation&typ…