From d9f5b0ce14deef432f886abadfa0b3e8a69e5698 Mon Sep 17 00:00:00 2001 From: Uwe Schmidt Date: Fri, 26 Apr 2024 11:43:17 +0200 Subject: [PATCH] Update README.md --- README.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/README.md b/README.md index 84541b1..175a4be 100644 --- a/README.md +++ b/README.md @@ -49,7 +49,7 @@ The plugin does perform input validation, i.e. it will disable the `Run` button **Pre-trained Model**: Select a registered pre-trained model from a list. The first time a model is selected, it is downloaded and cached locally. -**Custom Model**: Provide a path to a StarDist model folder, containing at least `config.json` and a compatible neural network weights file (with suffix `.h5` or `.hdf5`). If present, `thresholds.json` is also loaded and its values can be used via the button *Set optimized postprocessing thresholds (for selected model)*. +**Custom Model**: Provide a path to a StarDist model folder, containing at least `config.json` and a compatible neural network weights file (with suffix `.h5` or `.hdf5`). If present, `thresholds.json` is also loaded and its values can be used via the button *Set optimized postprocessing thresholds (for selected model)*. If you want to use [a model from bioimage.io]([url](https://bioimage.io/#/?tags=stardist&type=model)), you first need to convert it to the regular StarDist model folder format (see how to do this [here]([url](https://nbviewer.org/github/stardist/stardist/blob/main/examples/other2D/bioimageio.ipynb#Import-bioimage.io-model-as-StarDist-model))). **Model Axes**: A read-only text field that shows the semantic axes that the currently selected model expects as input. Additionally, we show the number of expected input channels, e.g. `YXC[2]` to indicate that the model expects a 2D input image with 2 channels. Seeing the model axes is helpful to understand whether the axes of the input image are compatible or not.