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kevinjohncutler / omnipose

Omnipose: a high-precision solution for morphology-independent cell segmentation
https://omnipose.readthedocs.io
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Available pretrained models discrepancy #90

Closed lacan closed 3 months ago

lacan commented 4 months ago

Just an FYI that the documentation mentions a bact_phase_omni2 model that cannot be downloaded

https://omnipose.readthedocs.io/models.html

It is not on the list here... https://github.com/kevinjohncutler/omnipose/blob/0cc6c63a3bbeabfa4b275bc7c3f02365139f7567/omnipose/core.py#L34

but it's not here either https://github.com/kevinjohncutler/omnipose-models

So it defaults to cyto which incidentally always fails for me so perhaps it would be relevant to change the default model choice for omnipose to cyto2_omni

Is that model not available?

@romainGuiet for completion Thanks for any information and all the best

Oli

kevinjohncutler commented 4 months ago

@lacan Yeah sorry about that, I listed bact_phase_omni2 in the docs but it is a model trained for an upcoming paper so I have not published it yet or made it a default model.