copick / score-all-picks / 0.0.13

Evaluate Picks Against Multilabel Segmentation

A solution that evaluates picks from a Copick project against a multilabel segmentation and computes metrics for each (user_id, session_id, object_name) pair for each run and across all runs.
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 of the painting segmentation. (default value: PARAMETER_VALUE)
--voxel_spacing
Voxel spacing used to scale pick locations. (default value: PARAMETER_VALUE)
--segmentation_idx_offset
Offset for segmentation indices (default 0). (default value: 0)
--output_stats_dir
Directory to save output statistics. (default value: PARAMETER_VALUE)

Usage instructions

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