JupyterFramework.backup_step_to_previous()
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JupyterFramework.boot_gui()
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Initial booting of the gui |
JupyterFramework.calculate_and_plot_distances_proteins(obj)
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calculate all minimal distances between a protein and a sphere |
JupyterFramework.calculate_and_plot_sphere_radii(obj)
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Call calculation of all sphere radii |
JupyterFramework.crop_fit(obj)
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Crop fit around fit |
JupyterFramework.dbscan_recluster(obj)
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run DBSCAN clustering and re-assign clusters |
JupyterFramework.delete_cluster(obj)
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JupyterFramework.delete_fit(obj)
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deletes a selected fit |
JupyterFramework.delete_normals(obj)
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JupyterFramework.execute_delete_protein_positions(obj)
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JupyterFramework.execute_load_protein_position(obj)
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Load the position file to calculate distances |
JupyterFramework.fit_cylinder(obj)
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Fit lstsq ellipsoid to selected cluster |
JupyterFramework.fit_ellipsoid(obj)
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Fit lstsq ellipsoid to selected cluster |
JupyterFramework.fit_idx_conv()
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Helper function to convert the index of a fit |
JupyterFramework.fit_parametrization(...)
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JupyterFramework.fit_rbf(obj)
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fit RBF to selected clusters |
JupyterFramework.fit_sphere(obj)
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Fit lstsq sphere to selected cluster |
JupyterFramework.flip_normals(obj)
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JupyterFramework.get_and_plot_normals(obj)
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JupyterFramework.get_fit_normals(obj)
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JupyterFramework.gui_elements_cluster_analysis()
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Load Loading interface |
JupyterFramework.gui_elements_loading()
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Load Loading interface |
JupyterFramework.highlight_clusters(obj)
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JupyterFramework.highlight_clusters_size(obj)
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JupyterFramework.highlight_fits(obj)
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JupyterFramework.load_from_point_cloud(obj)
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JupyterFramework.load_from_stl_file(obj)
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JupyterFramework.load_mrc_file(obj)
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Load MRC file and populate backend |
JupyterFramework.load_pickle(obj)
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load state as hdf5 |
JupyterFramework.load_raw_image(obj)
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Load a raw mrc slice |
JupyterFramework.load_state_hdf(obj)
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load state as hdf5 |
JupyterFramework.load_viz(obj)
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Load Visualizations |
JupyterFramework.merge_clusters(obj)
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Merge selected clusters |
JupyterFramework.outlier_removal(obj)
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remove statistical outliers |
JupyterFramework.plot_cluster_size(obj)
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JupyterFramework.reload_gui()
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Reloads the entire gui after applying changes |
JupyterFramework.remove_eigenvalue_outliers(obj)
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remove edge outliers |
JupyterFramework.reset_input(obj)
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Reset input |
JupyterFramework.rotate_back(obj)
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rotate Lamina back to original position |
JupyterFramework.rotate_flat(obj)
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Rotate Lamina Flat onto xy plane |
JupyterFramework.sample_fit(obj)
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JupyterFramework.save_clusters_mrc(obj)
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Saves an MRC file with the selected clusters and fits |
JupyterFramework.save_clusters_txt(obj)
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Saves a TXT file with the selected clusters and fits |
JupyterFramework.save_distance_file(obj)
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JupyterFramework.save_distance_plot(obj)
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JupyterFramework.save_downcloud_txt(obj)
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JupyterFramework.save_normals_file(obj)
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JupyterFramework.save_pickle(obj)
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save state as hdf5 file |
JupyterFramework.save_radii_file(obj)
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JupyterFramework.save_radii_plot(obj)
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JupyterFramework.save_state_hdf(obj)
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save state as hdf5 file |
JupyterFramework.split_clusters(obj)
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Split selected clusters |
JupyterFramework.trim_top_bottom(obj)
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Above and below a certain value |
JupyterFramework.undo_step(obj)
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undo last step |
JupyterFramework.update_downsampling()
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Downsample large point clouds. |