mianalysis / mia-deeplearning Goto Github PK

DEPRECATION NOTE: MIA-DeepLearning modules have now been incorporated directly into the main MIA plugin (since MIA v1.2.0). These modules will only appear in MIA if the CSBDeep and StarDist update sites are enabled.

MIA-DeepLearning is a MIA plugin, which adds additional modules that rely on the CSBDeep Fiji plugin for deep learning. The latest release includes the following modules:

• "StarDist detection" will apply StarDist to each slice of an input image and output the detected objects.

1. Download the version of MIA-DeepLearning, corresponding to your copy of MIA, from the Releases page
2. Place this .jar file into the /plugins directory of the your Fiji installation
3. Install CSBDeep and StarDist from the ImageJ Updater tool

MIA-DeepLearning will add various modules to MIA. These can be accessed in the same way as other modules.

This plugin currently relies on the CSBDeep and StarDist plugins for ImageJ.

This plugin is still in development and test coverage is currently incomplete. Please keep an eye on results and add an issue if any problems are encountered.