copick / discover-picks / 0.0.11

Classify and Match Embeddings to Known Particle Classes with Multithreading

Uses multithreading to compare median embeddings from a Zarr dataset to known class medians and identifies matches based on a configurable distance threshold.

Arguments

--embedding_directory

Path to the embedding Zarr directory. (default value: PARAMETER_VALUE)

--median_embeddings_path

Path to the CSV file with median embeddings and distances. (default value: PARAMETER_VALUE)

--matches_output_path

Path for the output file containing matches. (default value: PARAMETER_VALUE)

--distance_threshold

Distance threshold factor to consider a match. (default value: PARAMETER_VALUE)

Usage instructions

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