pykingenie

• pykingenie package
  • Subpackages
    • pykingenie.utils package
      • Submodules
      • pykingenie.utils.fitting_general module
      • pykingenie.utils.fitting_solution module
      • pykingenie.utils.fitting_surface module
      • pykingenie.utils.math module
      • pykingenie.utils.palettes module
      • pykingenie.utils.plotting module
      • pykingenie.utils.processing module
      • pykingenie.utils.signal_solution module
      • pykingenie.utils.signal_surface module
  • Submodules
  • pykingenie.fitter module
    • KineticsFitterGeneral
      • KineticsFitterGeneral.__init__()
      • KineticsFitterGeneral.clear_fittings()
      • KineticsFitterGeneral.create_fitting_bounds_table()
  • pykingenie.fitter_solution module
    • KineticsFitterSolution
      • KineticsFitterSolution.name
      • KineticsFitterSolution.assoc_lst
      • KineticsFitterSolution.lig_conc
      • KineticsFitterSolution.prot_conc
      • KineticsFitterSolution.time_assoc_lst
      • KineticsFitterSolution.signal_ss
      • KineticsFitterSolution.signal_ss_fit
      • KineticsFitterSolution.signal_assoc_fit
      • KineticsFitterSolution.fit_params_kinetics
      • KineticsFitterSolution.fit_params_ss
      • KineticsFitterSolution.__init__()
      • KineticsFitterSolution.get_steady_state()
      • KineticsFitterSolution.fit_single_exponentials()
      • KineticsFitterSolution.group_k_obs_by_protein_concentration()
      • KineticsFitterSolution.fit_double_exponentials()
      • KineticsFitterSolution.group_double_exponential_k_obs_by_protein_concentration()
      • KineticsFitterSolution.fit_one_binding_site()
      • KineticsFitterSolution.find_initial_params_if()
      • KineticsFitterSolution.fit_induced_fit()
      • KineticsFitterSolution.find_initial_params_cs()
      • KineticsFitterSolution.fit_conformational_selection()
  • pykingenie.fitter_surface module
    • KineticsFitter
      • KineticsFitter.names
      • KineticsFitter.assoc_lst
      • KineticsFitter.disso_lst
      • KineticsFitter.lig_conc_lst
      • KineticsFitter.time_assoc_lst
      • KineticsFitter.time_disso_lst
      • KineticsFitter.is_single_cycle
      • KineticsFitter.signal_ss
      • KineticsFitter.signal_ss_fit
      • KineticsFitter.signal_assoc_fit
      • KineticsFitter.signal_disso_fit
      • KineticsFitter.lig_conc_lst_per_id
      • KineticsFitter.smax_guesses_unq
      • KineticsFitter.smax_guesses_shared
      • KineticsFitter.fit_params_kinetics
      • KineticsFitter.fit_params_ss
      • KineticsFitter.__init__()
      • KineticsFitter.get_steady_state()
      • KineticsFitter.fit_steady_state()
      • KineticsFitter.get_k_off_initial_guess()
      • KineticsFitter.fit_one_site_association()
      • KineticsFitter.fit_one_site_dissociation()
      • KineticsFitter.fit_single_exponentials()
      • KineticsFitter.fit_one_site_assoc_and_disso()
      • KineticsFitter.calculate_ci95()
      • KineticsFitter.fit_one_site_if_assoc_and_disso()
  • pykingenie.gator module
    • GatorExperiment
      • GatorExperiment.__init__()
      • GatorExperiment.read_all_gator_data()
      • GatorExperiment.read_experiment_ini()
      • GatorExperiment.read_settings_ini()
      • GatorExperiment.read_sensor_data()
  • pykingenie.kingenie_solution module
    • KinGenieCsvSolution
      • KinGenieCsvSolution.name
      • KinGenieCsvSolution.xs
      • KinGenieCsvSolution.ys
      • KinGenieCsvSolution.no_traces
      • KinGenieCsvSolution.traces_names
      • KinGenieCsvSolution.traces_names_unique
      • KinGenieCsvSolution.conc_df
      • KinGenieCsvSolution.traces_loaded
      • KinGenieCsvSolution.__init__()
      • KinGenieCsvSolution.read_csv()
  • pykingenie.kingenie_surface module
    • KinGenieCsv
      • KinGenieCsv.name
      • KinGenieCsv.fn
      • KinGenieCsv.xs
      • KinGenieCsv.ys
      • KinGenieCsv.no_sensors
      • KinGenieCsv.sensor_names
      • KinGenieCsv.sensor_names_unique
      • KinGenieCsv.ligand_conc_df
      • KinGenieCsv.df_steps
      • KinGenieCsv.traces_loaded
      • KinGenieCsv.__init__()
      • KinGenieCsv.read_csv()
  • pykingenie.main module
    • KineticsAnalyzer
      • KineticsAnalyzer.__init__()
      • KineticsAnalyzer.delete_experiment()
      • KineticsAnalyzer.add_experiment()
      • KineticsAnalyzer.collapse_solution_experiments()
      • KineticsAnalyzer.init_fittings()
      • KineticsAnalyzer.add_fitting()
      • KineticsAnalyzer.get_experiment_properties()
      • KineticsAnalyzer.merge_ligand_conc_df()
      • KineticsAnalyzer.merge_conc_df_solution()
      • KineticsAnalyzer.generate_fittings()
      • KineticsAnalyzer.generate_fittings_solution()
      • KineticsAnalyzer.submit_steady_state_fitting()
      • KineticsAnalyzer.submit_fitting_solution()
      • KineticsAnalyzer.submit_kinetics_fitting()
      • KineticsAnalyzer.calculate_asymmetric_error()
      • KineticsAnalyzer.get_fitting_results()
      • KineticsAnalyzer.get_legends_table()
  • pykingenie.octet module
    • OctetExperiment
      • OctetExperiment.name
      • OctetExperiment.fns
      • OctetExperiment.xs
      • OctetExperiment.ys
      • OctetExperiment.exp_info
      • OctetExperiment.step_info
      • OctetExperiment.no_steps
      • OctetExperiment.no_sensors
      • OctetExperiment.sample_column
      • OctetExperiment.sample_row
      • OctetExperiment.sample_type
      • OctetExperiment.sample_id
      • OctetExperiment.sensor_names_unique
      • OctetExperiment.sensor_names
      • OctetExperiment.df_steps
      • OctetExperiment.ligand_conc_df
      • OctetExperiment.ligand_conc_df.head
      • OctetExperiment.traces_loaded
      • OctetExperiment.sample_plate_loaded
      • OctetExperiment.sample_conc
      • OctetExperiment.sample_conc_labeled
      • OctetExperiment.steps_performed
      • OctetExperiment.steps_performed.head
      • OctetExperiment.__init__()
      • OctetExperiment.read_sensor_data()
      • OctetExperiment.generate_ligand_conc_df()
      • OctetExperiment.merge_consecutive_steps()
      • OctetExperiment.merge_consecutive_steps_by_name()
      • OctetExperiment.read_sample_plate_info()
      • OctetExperiment.convert_to_numbers()
  • pykingenie.solution_exp module
    • SolutionBasedExp
      • SolutionBasedExp.name
      • SolutionBasedExp.type
      • SolutionBasedExp.xs
      • SolutionBasedExp.ys
      • SolutionBasedExp.no_traces
      • SolutionBasedExp.traces_names
      • SolutionBasedExp.traces_names_unique
      • SolutionBasedExp.conc_df
      • SolutionBasedExp.traces_loaded
      • SolutionBasedExp.__init__()
      • SolutionBasedExp.create_unique_traces_names()
      • SolutionBasedExp.cut_off_time()
      • SolutionBasedExp.get_trace_xy()
  • pykingenie.surface_exp module
    • SurfaceBasedExperiment
      • SurfaceBasedExperiment.name
      • SurfaceBasedExperiment.type
      • SurfaceBasedExperiment.xs
      • SurfaceBasedExperiment.ys
      • SurfaceBasedExperiment.sensor_names
      • SurfaceBasedExperiment.ligand_conc_df
      • SurfaceBasedExperiment.df_steps
      • SurfaceBasedExperiment.steps_performed
      • SurfaceBasedExperiment.traces_loaded
      • SurfaceBasedExperiment.sample_plate_loaded
      • SurfaceBasedExperiment.__init__()
      • SurfaceBasedExperiment.create_unique_sensor_names()
      • SurfaceBasedExperiment.check_sensor_name()
      • SurfaceBasedExperiment.subtraction_one_to_one()
      • SurfaceBasedExperiment.subtraction()
      • SurfaceBasedExperiment.average()
      • SurfaceBasedExperiment.align_association()
      • SurfaceBasedExperiment.subtract_experiment()
      • SurfaceBasedExperiment.subtraction_by_column()
      • SurfaceBasedExperiment.align_dissociation()
      • SurfaceBasedExperiment.discard_steps()
      • SurfaceBasedExperiment.get_step_xy()