Index

A

add_listboxes() (MSIGen.GUI.FileExplorerWindow method) agilent_d_ms1_no_mob() (MSIGen.D.MSIGen_D method)

agilent_d_ms2_no_mob() (MSIGen.D.MSIGen_D method) assign_values_to_pixel_njit() (MSIGen.base_class.MSIGen_base method)

B

base_peak_normalize_pixels() (in module MSIGen.visualization)

bruker_d_ms1_no_mob() (MSIGen.D.MSIGen_D method) bruker_d_ms2_no_mob() (MSIGen.D.MSIGen_D method)

C

callback() (MSIGen.base_class.get_confirmation method) check_dim() (MSIGen.base_class.MSIGen_base method) (MSIGen.D.MSIGen_D method) (MSIGen.mzml.MSIGen_mzml method) (MSIGen.raw.MSIGen_raw method) check_for_existing_files() (MSIGen.base_class.MSIGen_base method)

close_raw_file_selection_window() (MSIGen.GUI.FileExplorerWindow method) column_header_check() (MSIGen.base_class.MSIGen_base method) column_type_check() (MSIGen.base_class.MSIGen_base method) confirm_overwrite_file() (MSIGen.base_class.MSIGen_base method) consolidate_filter_list() (MSIGen.base_class.MSIGen_base method) custom_warning() (in module MSIGen.base_class)

D

data_format (MSIGen.D.MSIGen_D attribute) default() (MSIGen.base_class.NpEncoder method) delete_selected_rawfiles() (MSIGen.GUI.MasterWindow method) desiredModeDict (MSIGen.D.MSIGen_D attribute) despike_images() (in module MSIGen.visualization) destroy_all_windows() (MSIGen.GUI.MasterWindow method) determine_file_format() (MSIGen.D.MSIGen_D method)

determine_titles() (in module MSIGen.visualization) deviceTypeDict (MSIGen.D.MSIGen_D attribute) display_fractional_images() (in module MSIGen.visualization) display_images() (in module MSIGen.visualization) display_mass_list() (MSIGen.base_class.MSIGen_base method) (MSIGen.GUI.MasterWindow method) display_ratio_images() (in module MSIGen.visualization)

E

extract_masses_no_mob() (MSIGen.base_class.MSIGen_base method)

F

FileExplorerWindow (class in MSIGen.GUI) fill_listbox_driveletters() (MSIGen.GUI.FileExplorerWindow method)

fill_param_box() (MSIGen.GUI.MasterWindow method) flatten_list() (MSIGen.base_class.MSIGen_base static method) fractional_abundance_images() (in module MSIGen.visualization)

G

generate_images() (MSIGen.GUI.MasterWindow method) get_agilent_scan() (MSIGen.D.MSIGen_D static method) get_all_ms_and_mobility_windows() (MSIGen.base_class.MSIGen_base method) get_and_display_images() (in module MSIGen.visualization) get_attr_values() (MSIGen.base_class.MSIGen_base method) get_basic_instrument_metadata() (MSIGen.base_class.MSIGen_base method) (MSIGen.D.MSIGen_D method) (MSIGen.raw.MSIGen_raw method) get_basic_instrument_metadata_agilent() (MSIGen.D.MSIGen_D method) get_basic_instrument_metadata_bruker_d_tsf_no_mob() (MSIGen.D.MSIGen_D method) get_confirmation (class in MSIGen.base_class) get_CountsPerFilter() (MSIGen.base_class.MSIGen_base method) get_current_directory_contents() (MSIGen.GUI.FileExplorerWindow method) get_default_load_path() (MSIGen.base_class.MSIGen_base method) get_download_path() (in module MSIGen.GUI) get_file_extension() (MSIGen.base_class.MSIGen_base static method) get_filter_idx() (MSIGen.base_class.MSIGen_base method) (MSIGen.D.MSIGen_D method) get_filters_info() (MSIGen.base_class.MSIGen_base method) (MSIGen.raw.MSIGen_raw method) get_final_mass_list_gui() (in module MSIGen.GUI) get_fractional_abundance_imgs() (in module MSIGen.visualization) get_image_data() (MSIGen.base_class.MSIGen_base method)

get_input_vars() (MSIGen.GUI.MasterWindow method) get_line_list() (MSIGen.base_class.MSIGen_base method) get_mass_list() (MSIGen.base_class.MSIGen_base method) get_mass_mobility_lists() (MSIGen.base_class.MSIGen_base method) get_mass_or_mobility_window() (MSIGen.base_class.MSIGen_base method) get_metadata_and_params() (MSIGen.base_class.MSIGen_base method) (MSIGen.msigen.msigen class method) get_mobility_range_from_mzml_spectrum() (MSIGen.mzml.MSIGen_mzml method) get_normalize_value() (in module MSIGen.visualization) get_num_spe_per_group_aligned() (MSIGen.base_class.MSIGen_base method) get_pixels_to_display() (in module MSIGen.visualization) get_ratio_imgs() (in module MSIGen.visualization) get_raw_files() (MSIGen.base_class.MSIGen_base method) get_scale_threshold_values() (MSIGen.GUI.MasterWindow method) get_scan_without_zeros() (MSIGen.base_class.MSIGen_base method) (MSIGen.raw.MSIGen_raw method) get_ScansPerFilter() (MSIGen.base_class.MSIGen_base method) (MSIGen.D.MSIGen_D method) (MSIGen.mzml.MSIGen_mzml method) (MSIGen.raw.MSIGen_raw method) get_selected_drive_values() (MSIGen.GUI.FileExplorerWindow method) get_selected_values() (MSIGen.GUI.FileExplorerWindow method) getUserParam() (MSIGen.mzml.MSIGen_mzml method)

H

HiddenPrints (class in MSIGen.base_class)

I

initialize_param_box() (MSIGen.GUI.MasterWindow method)

ionModeDict (MSIGen.D.MSIGen_D attribute) ionPolarityDict (MSIGen.D.MSIGen_D attribute)

L

load_files() (MSIGen.base_class.MSIGen_base method) (MSIGen.D.MSIGen_D method) (MSIGen.mzml.MSIGen_mzml method) (MSIGen.raw.MSIGen_raw method)

load_pixels() (MSIGen.base_class.MSIGen_base method) (MSIGen.msigen.msigen static method)

M

make_filter_string_from_filter_dict() (MSIGen.raw.MSIGen_raw method) make_metadata_dict() (MSIGen.base_class.MSIGen_base method) MasterWindow (class in MSIGen.GUI) match_to_mass_list() (in module MSIGen.visualization) module MSIGen.base_class MSIGen.D MSIGen.GUI MSIGen.msigen MSIGen.mzml MSIGen.raw MSIGen.tsf MSIGen.visualization monitor_progressbar() (MSIGen.GUI.MasterWindow method) move_to_parent_dir() (MSIGen.GUI.FileExplorerWindow method) ms1_interp() (MSIGen.base_class.MSIGen_base method) ms1_mob() (MSIGen.base_class.MSIGen_base method) ms1_no_mob() (MSIGen.base_class.MSIGen_base method) (MSIGen.mzml.MSIGen_mzml method) (MSIGen.raw.MSIGen_raw method) ms2_interp() (MSIGen.base_class.MSIGen_base method) ms2_mob() (MSIGen.base_class.MSIGen_base method) ms2_no_mob() (MSIGen.base_class.MSIGen_base method) (MSIGen.raw.MSIGen_raw method)

msigen (class in MSIGen.msigen) MSIGen.base_class module MSIGen.D module MSIGen.GUI module MSIGen.msigen module MSIGen.mzml module MSIGen.raw module MSIGen.tsf module MSIGen.visualization module MSIGen_base (class in MSIGen.base_class) MSIGen_D (class in MSIGen.D) MSIGen_mzml (class in MSIGen.mzml) MSIGen_raw (class in MSIGen.raw) MyButton (class in MSIGen.GUI) mzml_ms1_mob() (MSIGen.mzml.MSIGen_mzml method) mzml_ms2_mob() (MSIGen.mzml.MSIGen_mzml method) mzml_ms2_no_mob() (MSIGen.mzml.MSIGen_mzml method)

N

normalize_ms2_timestamps() (MSIGen.base_class.MSIGen_base method)

normalize_pixels() (in module MSIGen.visualization) NpEncoder (class in MSIGen.base_class)

O

on_double_click() (MSIGen.GUI.FileExplorerWindow method) on_double_click_drives() (MSIGen.GUI.FileExplorerWindow method) on_dropdown_change() (MSIGen.GUI.FileExplorerWindow method) on_return() (MSIGen.GUI.FileExplorerWindow method) on_textbox_resize() (MSIGen.GUI.FileExplorerWindow method)

on_textbox_return() (MSIGen.GUI.FileExplorerWindow method) open_file_explorer() (MSIGen.GUI.MasterWindow method) open_hyperlink() (MSIGen.GUI.MasterWindow method) open_image_maker() (MSIGen.GUI.MasterWindow method) open_images_were_saved_dialog() (MSIGen.GUI.MasterWindow method) open_progessbar_window() (MSIGen.GUI.MasterWindow method)

P

parse_bruker_scan_level() (MSIGen.D.MSIGen_D static method) parse_filter_string() (MSIGen.raw.MSIGen_raw method) pixels_list_to_array() (MSIGen.base_class.MSIGen_base method)

plot_image() (in module MSIGen.visualization) progressbar_start_extraction() (MSIGen.base_class.MSIGen_base method) progressbar_start_preprocessing() (MSIGen.base_class.MSIGen_base method) progressbar_update_progress() (MSIGen.base_class.MSIGen_base method)

R

ratio_images() (in module MSIGen.visualization) receive_raw_files() (MSIGen.GUI.MasterWindow method) reorder_pixels() (MSIGen.base_class.MSIGen_base method) (MSIGen.raw.MSIGen_raw method)

reselect_raw_files() (MSIGen.GUI.MasterWindow method) resize_images_to_same_size() (MSIGen.base_class.MSIGen_base method) run_GUI() (in module MSIGen.GUI) (MSIGen.base_class.MSIGen_base static method) run_workflow() (MSIGen.GUI.MasterWindow method)

S

save_pixels() (MSIGen.base_class.MSIGen_base method) scale_or_threshold_display() (MSIGen.GUI.MasterWindow method) scanLevelDict (MSIGen.D.MSIGen_D attribute) scanModeDict (MSIGen.D.MSIGen_D attribute) scanTypeDict (MSIGen.D.MSIGen_D attribute) segment_filename() (MSIGen.base_class.MSIGen_base method)

select_mass_file() (MSIGen.GUI.MasterWindow method) select_mass_list_cols_to_use() (MSIGen.base_class.MSIGen_base method) select_output_file_path() (MSIGen.GUI.MasterWindow method) show_or_hide_std_idx_entry() (MSIGen.GUI.MasterWindow method) sort_raw_files() (MSIGen.base_class.MSIGen_base method) sorted_slice() (MSIGen.base_class.MSIGen_base static method)

T

tdf_d_ms1_mob() (MSIGen.D.MSIGen_D method)

tdf_d_ms2_mob() (MSIGen.D.MSIGen_D method) toggle_checkbox() (MSIGen.GUI.MasterWindow method)

V

vectorized_sorted_slice() (MSIGen.base_class.MSIGen_base static method) vectorized_sorted_slice_njit() (MSIGen.base_class.MSIGen_base method)

vectorized_unsorted_slice() (MSIGen.base_class.MSIGen_base static method) vectorized_unsorted_slice_mob() (MSIGen.base_class.MSIGen_base static method) verify_rawfile_names_gui() (in module MSIGen.GUI)