cellpose

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[BUG] Document or expose the 'remove big masks' filter

2

**Describe the bug** A user ([the40x](https://forum.image.sc/u/the40x)) struggled with segmenting their large mask. The cell probability output looked clean and they were puzzled why despite tuning flow error/prob threshold etc, they...

ashishUthama

RTD notebook pages

1

Add nbsphinx extension to add notebooks to the RTD pages - [x] Add links to index.rst - [ ] Move notebooks to live in /docs - [ ] Double check...

mrariden

[FEATURE] Prediction/training on all available channels

9

Hello, First of all, I'd like to thank you for the great work. I'm highly interested in multimodality and information contained across more than one channel. In that spirit, I...

remyeltorro

Let user define a custom name for the output image.

2

**Is your feature request related to a problem? Please describe.** Currently the name of the output image is only built by adding the suffix cp_masks to the name of the...

VictorDidier

I think it would be great to begin a centralized database of user models for different stains/cell types. That way people could have more specific starting places for their models.

penguingiraffe2

Duplicates of trained models in GUI drop-down custom model menu [BUG]

3

Hello! I'm currently training cellpose from a pre-trained model, and have been working over the span of multiple days. When I start open cellpose each day, I start training a...

b-faith

[FEATURE] Support for distributed learning

1

**Is your feature request related to a problem? Please describe.** Could Cellpose use something like [SageMaker SDK ](https://docs.aws.amazon.com/sagemaker/latest/dg/distributed-training.html) To perform distributed training - allowing for the GUI / Human in...

robbrad

Adding GPU support to the GUI in Apple Silicon

1

Hello Cellpose team! I noticed that M1 GPU support is in the command-line mode in #523, but not yet in GUI. This PR checks if the platform is 'arm', the...

PikaPei

Improvements of the GUI

2

Dear all, First of all I wanted to thank you for your work that has revolutionized image analysis in biology. I would like to suggest new features to improve the...

AlexHego

"element 0 of tensors does not require grad" when training model

2

When I try to train my model (through the GUI), I get the following error: ``` Traceback (most recent call last): File "/Users/kelsey/cellpose/cellpose/gui/gui.py", line 1618, in new_model self.train_model() File "/Users/kelsey/cellpose/cellpose/gui/gui.py",...

ktyssowski