cellpose
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MouseLand
a generalist algorithm for cellular segmentation with human-in-the-loop capabilities
**Install problem** Running a simple upgrade using pip `python -m pip install cellpose --upgrade` leads to a segmentation fault when launching cellpose. This was fixed by starting from a fresh...
Some users may want to use a python version already present on their machine. The easiest way to do this is with python's native venv. I created cellpose installation instructions...
Importing any package before Cellpose in a python script results in a segfault when the model is instantiated. ``` import numpy as np # or matplotlib, skimage ... from cellpose.models...
Hello! I am working with some NanoString datasets outside their AtoMx SIP. I have used Cellpose GUI to run some segmentations which I like, but I am unable to extract...
Related to issue #937 When Cellpose detect over 65,535 it casts the masks vector to `uint32`. However, this format is not natively supported by OpenCV, causing its `resize` function to...
When trying to extend the code I noticed that the code doesn't conform to PEP 8 or PEP 257 and generally the internal code documentation is few and far between,...
Hi! I'm wondering how model training works? I am currently trying to train a model in cellpose 3.0.8 to identify all muscle fiber cells in a cross section with IF...
**Description** If cellpose detects over 65,535 masks, images are cast to uint32 and then rescaled using cv2. However, this is interpreted as type `CV_32S` (signed integer as opposed to unsigned)...
Hi, I have an ome.tiff image from Xenium instrument and I am using cellpose to do segmentation. However, the file is too heavy and I can not do so even...
Cellpose version 3.0.10 and cellprofiler 4.2.6. I can't get cellpose to run as a plug-in. It runs in the same environment fine. But I can't edit the runcellpose file to...
