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Hello,
Thanks a lot for the efficient 2D segmentation plugin you provide. Hard to find a pretrained model that performs already so good out of the box.
I have few questions concerning points for whi…
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Hi Cellpose team,
I am trying to segment cells in a 2048x2048 image with a red (cytoplasm) and blue (nuclei) channel. In a first attempt, I rescaled the image to 512x512 and segmentation worked fin…
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running current version of cellpose on macOS Mojave or Catalina results in segmentation 11 error when launching GUI version and simply fails to process images in command line.
azijl updated
4 years ago
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# Objective
*As a user relying on a 3rd party automated segmentation tools, I want to assign spots to cells using a pre-trained model so that I can generate a spatially annotated gene expression matr…
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Hi CellPose team,
Thank you for your amazing tool! I found it very promising. I have some questions about the application of this tool in practice.
1. What kind of images work best for the pre-t…
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When two lines have the same "title" AND "year" AND "authors" keep only one (the first? the most complete?)
Below the three key in ISI and SCOPUS:
- title --> ISI = TI / Scopus = Title
- year -->…
tommv updated
3 years ago
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Hi,
Thank you for sharing code for the opensource community.
I am trying to modify your source code as per my need but I am seeing very weird behavior.
I am trying to detect nuclei boundary using -…
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Hi. Thank you for the awesome code.
I have a problem to understand this code on the 63rd line of proc_kumar_ann.py :
```python
for idx, inst_map in enumerate(insts_list):
ann[inst_map > 0] = i…
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Hi Martin and Uwe!
I've trained a 3D model using 32x32x32 voxels patches - and so prediction must occur on patches of that size as well(?). But of course my actual 3D images are much larger. I woul…
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I'd like to suggest a way to determine the edge-to-edge or centre-to-centre distances for 3D labelled objects in sitk as well as maybe a way to tell the number of overlapping voxels for each object. T…