| calc_mse_from_identity_line |
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| calc_nmse_from_identity_line |
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| calc_nmse_from_phenotype_predictions |
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| calc_r_squared |
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| calc_r_squared_from_phenotype_predictions |
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| check_analyse_epochs |
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| check_csv_filename |
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| check_data |
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| check_data_opts_id |
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| check_datadir |
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| check_epoch |
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| check_epochs |
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| check_evaluate_results |
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| check_file_extension |
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| check_folder_name |
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| check_gcae_args |
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| check_gcae_experiment_params |
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| check_gcae_experiment_params_filename |
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| check_gcae_experiment_results |
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| check_gcae_folder |
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| check_gcae_input_data |
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| check_gcae_input_data_data_type |
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| check_gcae_input_filenames |
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| check_gcae_input_files |
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| check_gcae_is_installed |
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| check_gcae_options |
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| check_gcae_options_filename |
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| check_gcae_python_packages_are_installed |
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| check_gcae_repo_is_cloned |
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| check_gcae_script_is_fixed |
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| check_gcae_setup |
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| check_gcae_setup_filename |
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| check_gcae_train_files_are_present |
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| check_gcae_version |
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| check_genotype_concordances_table |
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| check_gif_filename |
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| check_input_files_are_present |
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| check_labels_table |
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| check_losses_from_train_t_table |
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| check_losses_from_train_v_table |
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| check_metric |
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| check_metrics |
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| check_model |
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| check_model_filename |
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| check_model_id |
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| check_n_neurons |
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| check_nmse_in_time_table |
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| check_ormr_folder_name |
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| check_pheno_model_filename |
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| check_pheno_model_id |
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| check_phenotype_predictions_table |
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| check_png_filename |
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| check_python_version |
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| check_r_squared_in_time_table |
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| check_resume_from |
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| check_save_interval |
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| check_score_per_pop_table |
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| check_scores_table |
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| check_superpops |
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| check_train_opts_id |
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| check_train_times_table |
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| check_trainedmodeldir |
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| check_trainedmodelname |
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| clean_file_path |
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| clean_gcaer_tempfolder |
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| clone_gcae_repo |
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| create_gcae_evaluate_args |
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| create_gcae_experiment_params |
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| create_gcae_input_data |
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| create_gcae_input_filenames |
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| create_gcae_input_files_1 |
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| create_gcae_input_files_2 |
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| create_gcae_options |
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| create_gcae_project_args |
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| create_gcae_setup |
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| create_gcae_train_args |
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| create_gcae_train_more_args |
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| create_genotype_concordances_through_time_png |
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| create_losses_from_train_t_through_time_png |
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| create_losses_from_train_v_through_time_png |
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| create_nmse_through_time_png |
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| create_phenotype_prediction_quality_png |
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| create_phenotype_prediction_through_time_gif |
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| create_phenotype_predictions_through_time_png |
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| create_plots_from_gcae_experiment_results |
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| create_r_squared_through_time_png |
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| create_score_per_pop_through_time_png |
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| create_scores_through_time_png |
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| create_test_gcae_experiment_params |
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| create_test_gcae_experiment_results |
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| create_test_gcae_input_data |
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| create_test_gcae_input_filenames |
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| create_test_gcae_setup |
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| create_test_genotype_concordances_table |
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| create_test_losses_from_train_t_table |
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| create_test_losses_from_train_v_table |
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| create_test_model |
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| create_test_nmse_in_time_table |
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| create_test_phenotype_predictions_table |
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| create_test_r_squared_in_time_table |
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| create_test_score_per_pop_table |
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| create_test_scores_table |
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| create_test_train_times_table |
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| create_train_times_through_time_png |
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| default_params_doc |
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| do_gcae_experiment |
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| evaluate_phenotype_prediction |
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| fix_gcae_script |
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|
| gcae_animate |
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| gcae_evaluate |
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|
| gcae_options_to_str |
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|
| gcae_plot |
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| gcae_project |
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| gcae_setup_to_str |
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| gcae_train |
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| gcae_train_more |
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|
| gcaer |
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|
| gcaer_report |
Man page
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|
| get_default_github_repo_branch_name |
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|
| get_default_github_repo_url |
Man page
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|
| get_default_ormr_folder_name |
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| get_gcae_data_opts_filename |
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| get_gcae_data_opts_filenames |
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| get_gcae_data_opts_ids |
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|
| get_gcae_example_filename |
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|
| get_gcae_example_filenames |
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| get_gcae_experiment_results_filenames |
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|
| get_gcae_folder |
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|
| get_gcae_help_text |
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|
| get_gcae_input_filenames |
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| get_gcae_model_filename |
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| get_gcae_model_filenames |
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| get_gcae_model_ids |
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|
| get_gcae_output_subfolder |
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|
| get_gcae_pheno_model_filename |
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|
| get_gcae_pheno_model_filenames |
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|
| get_gcae_pheno_model_ids |
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|
| get_gcae_required_python_packages |
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|
| get_gcae_train_opts_filename |
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|
| get_gcae_train_opts_filenames |
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|
| get_gcae_train_opts_ids |
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|
| get_gcae_trainedmodelname |
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|
| get_gcae_version |
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|
| get_gcaer_filename |
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|
| get_gcaer_filenames |
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|
| get_gcaer_folder |
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|
| get_gcaer_tempfilename |
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|
| get_gcaer_theme |
Man page
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|
| get_n_neurons_in_latent_layer |
Man page
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|
| get_n_neurons_in_latent_layer_from_gcae_experiment_params |
Man page
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|
| get_n_neurons_in_latent_layer_from_model |
Man page
Source code
|
| get_run_gcae_py_path |
Man page
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|
| get_test_data |
Man page
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|
| get_test_datadir |
Man page
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|
| get_test_labels_table |
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|
| has_cloned_gcae_repo |
Man page
Source code
|
| install_gcae |
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|
| install_gcae_requirements |
Man page
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|
| is_equal_json |
Man page
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|
| is_gcae_experiment_params |
Man page
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|
| is_gcae_installed |
Man page
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|
| is_gcae_repo_cloned |
Man page
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|
| is_gcae_script_fixed |
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|
| is_model |
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|
| is_tensorboard_installed |
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|
| normalize_true_and_estimated_values |
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|
| parse_evaluate_filenames |
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|
| parse_genotype_concordances_file |
Man page
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|
| parse_losses_from_project_file |
Man page
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|
| parse_losses_from_train_t_file |
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|
| parse_losses_from_train_v_file |
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|
| parse_project_files |
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|
| parse_score_per_pop_file |
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|
| parse_train_filenames |
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|
| parse_train_times_file |
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|
| plot_genotype_concordances_from_file |
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|
| plot_losses_from_train_t_from_file |
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|
| plot_losses_from_train_v_from_file |
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|
| plot_model |
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|
| plot_nmse_in_time_from_file |
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|
| plot_phenotype_predictions_from_file |
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|
| plot_r_squared_in_time_from_file |
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|
| plot_score_per_pop_from_file |
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| plot_scores_from_file |
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|
| plot_train_times_from_file |
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|
| project |
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|
| read_gcae_experiment_params_file |
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|
| read_gcae_input_files |
Man page
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|
| read_gcae_options_file |
Man page
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|
| read_gcae_setup_file |
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Source code
|
| read_genotype_concordances_file |
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|
| read_labels_file |
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|
| read_losses_from_train_t_file |
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|
| read_losses_from_train_v_file |
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|
| read_model_file |
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|
| read_nmse_in_time_file |
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|
| read_pheno_model_file |
Man page
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|
| read_phenotype_predictions_file |
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|
| read_r_squared_in_time_file |
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|
| read_score_per_pop_file |
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|
| read_scores_file |
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| read_train_times_file |
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|
| remove_gcaer_tempfolder |
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|
| rename_files |
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|
| resize_to_shared_individuals_from_data |
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|
| resize_to_shared_individuals_from_files |
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|
| run_gcae |
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|
| run_tensorboard |
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|
| save_gcae_experiment_params |
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|
| save_gcae_experiment_results |
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|
| save_gcae_input_data |
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|
| save_gcae_options |
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|
| save_gcae_setup |
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|
| save_labels_table |
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|
| save_model |
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|
| save_model_plot |
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|
| set_n_neurons_in_latent_layer |
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|
| summarise_gcae_input_data |
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|
| summarise_gcae_input_files |
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|
| uninstall_gcae |
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|
