cellcanvas / train-model / 0.0.3

Train Random Forest on Copick Painted Segmentation Data

A solution that trains a Random Forest model using Copick painted segmentation data and exports the trained model.
Tags
imagingcryoetPythonnapari
Solution written by
Kyle Harrington
License of solution
MIT
Source Code

Arguments

--copick_config_path
Path to the Copick configuration JSON file. (default value: PARAMETER_VALUE)
--painting_segmentation_name
Name for the painting segmentation. (default value: PARAMETER_VALUE)
--session_id
Session ID for the segmentation. (default value: PARAMETER_VALUE)
--user_id
User ID for segmentation creation. (default value: PARAMETER_VALUE)
--voxel_spacing
Voxel spacing used to scale pick locations. (default value: PARAMETER_VALUE)
--n_estimators
Number of trees in the Random Forest. (default value: PARAMETER_VALUE)
--model_output_path
Path for the output joblib file containing the trained Random Forest model (default value: PARAMETER_VALUE)

Usage instructions

Please follow this link for details on how to install and run this solution.