Get Started
Package Reference
Config
Config.create_directory_structure()
Config.load_config()
Config.print()
Config.save_config()
Config.set_config()
Config.set_permissions()
execute_volumetric_alignment()
execute_volumetric_alignment_bigstream()
transform_ref_round()
volumetric_alignment()
calculate_alignment_evaluation_ci()
measure_round_alignment_NCC()
plot_alignment_evaluation()
alignment_NCC()
template_matching()
synapses_roi_segmentation()
extract_synapse_coordinates()
measure_synapse_properties()
measure_synapse_properties_pairwise()
calculate_volume_and_surface_area()
chmod()
subtract_background_rolling_ball()
subtract_background_top_hat()
configure_logger()
create_folder_structure()
load_json()
nd2ToVol()
save_json()
To use ExR-tools, first install it using pip:
(.venv) $ pip install git+https://github.com/schroeme/ExR-tools