A plugin of a plugin.
This software adds a new cell detector to TrackMate, a cell/object tracker plugin for FIJI/ImageJ.
The detector uses a pretrained deep-learning model Lacss to find and segment cells.
- Install Lacss according to its documentation
- Install Trackmate-Lacss plugin via FIJI's the built-in updater, i.e.
Help/Update/Manage update sites.
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Lacss runs as an GRPC server listening at a TCP port (default: 50051). This simple Java plugin communicates with the server by sending/receiving messages encoded in protobuf.
Step 1: Start the Lacss server
python -m lacss.deploy.remote_server --modelpath=<model_file>
Run the command without argments to get a list of download URLs for model files
python -m lacss.deploy.remote_server
Step 2: Start TrackMate in FIJI. At the detector selection page, select "Lacss detector" from the dropdown menu.
Step 3: At the next configuration page, provide the correct server address.
