Napari plugin for Spotiflow
Project description
napari-spotiflow
Napari plugin for Spotiflow, a deep learning-based, threshold-agnostic, and subpixel-accurate spot detection method for fluorescence microscopy. For the main repo, see here.
https://github.com/weigertlab/napari-spotiflow/assets/11042162/99c09826-bda7-46bc-a9a8-6e0c52b3f9f1
Usage
- Open 2d raw image (or open one of our samples eg
File > Open Sample > napari-spotiflow > HybISS) - Start Plugin
Plugins > napari-spotiflow - Select model (pretrained or custom trained) and optionally adjust other parameter
- Click
run
Supported input formats
- 2D (YX or YXC)
- 2D+t (TYX or TYXC)
Installation
Clone the repo and install it in an environment with napari and spotiflow.
git clone git@github.com:weigertlab/napari-spotiflow.git
pip install -e napari-spotiflow
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napari-spotiflow-0.1.0.tar.gz
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