spacr.settings
==============

.. py:module:: spacr.settings






Module Contents
---------------

.. py:function:: set_default_plot_merge_settings()

.. py:function:: set_default_settings_preprocess_generate_masks(settings={})

.. py:function:: set_default_plot_data_from_db(settings)

.. py:function:: set_default_settings_preprocess_img_data(settings)

.. py:function:: set_default_umap_image_settings(settings={})

.. py:function:: get_measure_crop_settings(settings={})

.. py:function:: set_default_analyze_screen(settings)

.. py:function:: set_default_train_test_model(settings)

.. py:function:: set_generate_training_dataset_defaults(settings)

.. py:function:: deep_spacr_defaults(settings)

.. py:function:: get_train_test_model_settings(settings)

.. py:function:: get_analyze_recruitment_default_settings(settings)

.. py:function:: get_default_test_cellpose_model_settings(settings)

.. py:function:: get_default_apply_cellpose_model_settings(settings)

.. py:function:: default_settings_analyze_percent_positive(settings)

.. py:function:: get_analyze_reads_default_settings(settings)

.. py:function:: get_map_barcodes_default_settings(settings)

.. py:function:: get_train_cellpose_default_settings(settings)

.. py:function:: set_generate_dataset_defaults(settings)

.. py:function:: get_perform_regression_default_settings(settings)

.. py:function:: get_check_cellpose_models_default_settings(settings)

.. py:function:: get_identify_masks_finetune_default_settings(settings)

.. py:data:: q
   :value: None


.. py:data:: expected_types

.. py:data:: motility_settings
   :value: ['motility_analysis', 'tracked_object', 'infection_intensity_strategy', 'seconds_per_frame',...


.. py:data:: motility_advanced_settings
   :value: ['reuse_existing_measurements', 'infection_xgb_min_cells_per_class',...


.. py:data:: categories

.. py:data:: category_keys
   :value: ['Paths', 'General', 'Cellpose', 'Cell', 'Organelle', 'Organelle preprocessing', 'Organelle spot...


.. py:function:: check_settings(vars_dict, expected_types, q=None)

.. py:function:: generate_fields(variables, scrollable_frame)

.. py:data:: descriptions

.. py:function:: set_annotate_default_settings(settings)

.. py:function:: set_default_generate_barecode_mapping(settings={})

.. py:function:: get_default_generate_activation_map_settings(settings)

.. py:function:: get_analyze_plaque_settings(settings)

.. py:function:: set_graph_importance_defaults(settings)

.. py:function:: set_interperate_vision_model_defaults(settings)

.. py:function:: set_analyze_endodyogeny_defaults(settings)

.. py:function:: set_analyze_class_proportion_defaults(settings)

.. py:function:: get_plot_data_from_csv_default_settings(settings)

.. py:function:: set_default_stitch(settings=None)

.. py:function:: set_default_multichannel(settings=None)

.. py:function:: set_default_general(settings=None)

.. py:function:: get_automated_motility_assay_default_settings(settings)

