cellpose
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MouseLand
a generalist algorithm for cellular segmentation with human-in-the-loop capabilities
**Describe the bug** After annotating the image using CellPose2 version, I clicked to **save mask as PNG/tif**, but the image was not saved Perhaps I am not familiar with the...
See #1169 for details Adds functions to implement torch-directml. This library uses Directx12 to accelerate PyTorch, which is slower than CUDA but has the benefit of being compatible with any...
Hello, I am using the distributed cellpose module to run inference on a terabyte-scale 3D image (~5000x10000x10000 ZYX). I would like to use as much RAM + VRAM as possible...
I am trying to fine-tune the cpsam on 3D labeled images and am running into issues. I am running cellpose 4.0.4.dev0+ga75db82.d20250529 through a jupyter notebook interface on an HPC running...
I am fine-tuning Cellpose-SAM (cpsam) with my data. But the output seems to be completely blank. The same data, after fine-tuning Cyto3 or Cyto2 models, worked pretty well. The code...
**Describe the problem** Dear Cellpose team, first of all, thank you for developing and continuously improving Cellpose and Omnipose — these tools are invaluable to the community. I’m a PhD...
Hi Cellpose team, Thank you for maintaining such an impactful open-source tool in the bioimage analysis community. I’d like to suggest creating an official LinkedIn company page for Cellpose, similar...
**Describe the bug** A clear and concise description of what the bug is. **To Reproduce** Steps to reproduce the behavior: 1. Go to 'FILE' 2. Click on 'Load Image' 3....
Hi all, Thank you for your great work for years already. In [this commit](https://github.com/MouseLand/cellpose/commit/940bf4cf2bbe23b444270f0258560fe35257f45d#diff-ff9c338be35ecf3c8e6c8c5e9c11e5cdc27a155be96a7bcb19570b46a5fa4f2eL193), numba dependencies were removed. This included the `_label_overlap` function in metrics.py. In the `_intersection_over_union` function a...
