Index A | B | C | D | F | G | H | I | L | M | N | P | R | S | T | U | X | Y A add_or_remove_title() (in module homologyviz.plotter) adjust_positions_alignments_df_center() (in module homologyviz.gb_files_manipulation) adjust_positions_alignments_df_left() (in module homologyviz.gb_files_manipulation) adjust_positions_alignments_df_right() (in module homologyviz.gb_files_manipulation) adjust_positions_sequences_and_alignments_df_for_plotting() (in module homologyviz.gb_files_manipulation) adjust_positions_sequences_df_center() (in module homologyviz.gb_files_manipulation) adjust_positions_sequences_df_left() (in module homologyviz.gb_files_manipulation) adjust_positions_sequences_df_right() (in module homologyviz.gb_files_manipulation) align_plot() (in module homologyviz.callbacks) annotate_all_genes_above() (in module homologyviz.plotter) annotate_all_genes_below() (in module homologyviz.plotter) annotate_bottom_genes() (in module homologyviz.plotter) annotate_dna_sequences() (in module homologyviz.plotter) annotate_genes() (in module homologyviz.plotter) annotate_top_genes() (in module homologyviz.plotter) Arrow (class in homologyviz.arrow) B blastn_command_line() (in module homologyviz.gb_files_manipulation) C change_color_cell_cds_dataframe() (in module homologyviz.callbacks) change_homology_color() (in module homologyviz.plotter) check_if_alignments_are_at_left() (in module homologyviz.gb_files_manipulation) check_if_sequences_are_at_left() (in module homologyviz.gb_files_manipulation) check_plot_parameters_for_update_homologies() (in module homologyviz.callbacks) clean_directory() (in module homologyviz.miscellaneous) coordinates_arrow_forward() (homologyviz.arrow.Arrow method) coordinates_arrow_reverse() (homologyviz.arrow.Arrow method) coordinates_rectangle_height_bezier() (homologyviz.rectangle_bezier.RectangleCurveHeight method) create_color_line() (in module homologyviz.plotter) create_layout() (in module homologyviz.layout) D degree (homologyviz.rectangle_bezier.RectangleCurveHeight attribute) delete_files() (in module homologyviz.miscellaneous) F find_lowest_and_highest_homology_dataframe() (in module homologyviz.gb_files_manipulation) G genbank_files_metadata_to_dataframes() (in module homologyviz.gb_files_manipulation) get_bezier_curve() (homologyviz.rectangle_bezier.RectangleCurveHeight method) get_bezier_nodes_vertical() (homologyviz.rectangle_bezier.RectangleCurveHeight method) get_blast_metadata() (in module homologyviz.gb_files_manipulation) get_color_from_colorscale() (in module homologyviz.plotter) get_coordinates() (homologyviz.arrow.Arrow method) get_longest_sequence_dataframe() (in module homologyviz.gb_files_manipulation) get_os() (in module homologyviz.miscellaneous) get_package_path() (in module homologyviz.miscellaneous) get_truncated_colorscale() (in module homologyviz.plotter) H handle_change_color_click() (in module homologyviz.callbacks) handle_plot_button_click() (in module homologyviz.callbacks) handle_select_traces_click() (in module homologyviz.callbacks) handle_update_homologies_click() (in module homologyviz.callbacks) handle_update_title_click() (in module homologyviz.callbacks) handle_update_view_click() (in module homologyviz.callbacks) head_height (homologyviz.arrow.Arrow attribute) head_shoulder (homologyviz.arrow.Arrow attribute) head_width (homologyviz.arrow.Arrow attribute) heartbeat_monitor_started (homologyviz.callbacks.HeartBeatsParameters attribute) HeartBeatsParameters (class in homologyviz.callbacks) hide_homology() (in module homologyviz.plotter) homologyviz.app module homologyviz.arrow module homologyviz.assets module homologyviz.callbacks module homologyviz.cli module homologyviz.gb_files_manipulation module homologyviz.images module homologyviz.layout module homologyviz.miscellaneous module homologyviz.parameters module homologyviz.plotter module homologyviz.rectangle_bezier module I is_blastn_installed() (in module homologyviz.miscellaneous) L last_heartbeat (homologyviz.callbacks.HeartBeatsParameters attribute) list_sequential_color_scales() (in module homologyviz.layout) M main() (in module homologyviz.app) make_accordion_item_edit_color() (in module homologyviz.layout) make_accordion_item_edit_sequence_annotations() (in module homologyviz.layout) make_accordion_item_homology() (in module homologyviz.layout) make_accordion_item_insert_title() (in module homologyviz.layout) make_alignments() (in module homologyviz.plotter) make_dmc_select() (in module homologyviz.layout) make_fasta_files() (in module homologyviz.gb_files_manipulation) make_figure() (in module homologyviz.plotter) make_layout_control_panel() (in module homologyviz.layout) make_layout_plot_panel() (in module homologyviz.layout) make_offcanvas_edit_sequence_annotations() (in module homologyviz.layout) make_offcanvas_paper() (in module homologyviz.layout) make_offcanvas_segment_control() (in module homologyviz.layout) make_offcanvas_sequence_table() (in module homologyviz.layout) make_offcanvas_update_sequence_text() (in module homologyviz.layout) make_offcanvas_update_sequences_button() (in module homologyviz.layout) make_selection_effect() (in module homologyviz.plotter) make_tab_edit() (in module homologyviz.layout) make_tab_main() (in module homologyviz.layout) make_tab_save() (in module homologyviz.layout) make_tab_view() (in module homologyviz.layout) make_update_button_insert_title() (in module homologyviz.layout) module homologyviz.app homologyviz.arrow homologyviz.assets homologyviz.callbacks homologyviz.cli homologyviz.gb_files_manipulation homologyviz.images homologyviz.layout homologyviz.miscellaneous homologyviz.parameters homologyviz.plotter homologyviz.rectangle_bezier N num_points (homologyviz.rectangle_bezier.RectangleCurveHeight attribute) P parse_blast_record() (in module homologyviz.gb_files_manipulation) parse_command_line_input() (in module homologyviz.cli) parse_genbank_cds_to_df() (in module homologyviz.gb_files_manipulation) plot_colorbar_legend() (in module homologyviz.plotter) plot_dna_sequences() (in module homologyviz.plotter) plot_genes() (in module homologyviz.plotter) plot_homology_regions_with_dataframe() (in module homologyviz.plotter) plot_line() (in module homologyviz.plotter) plot_polygon() (in module homologyviz.plotter) plot_scale() (in module homologyviz.plotter) PlotParameters (class in homologyviz.parameters) proportions (homologyviz.rectangle_bezier.RectangleCurveHeight attribute) R ratio_tail_head_width (homologyviz.arrow.Arrow attribute) RectangleCurveHeight (class in homologyviz.rectangle_bezier) register_callbacks() (in module homologyviz.callbacks) remove_annotations_by_name() (in module homologyviz.plotter) remove_traces_by_name() (in module homologyviz.plotter) reset() (homologyviz.parameters.PlotParameters method) round_up_to_nearest_significant_digit() (in module homologyviz.miscellaneous) run_blastn() (in module homologyviz.gb_files_manipulation) S sample_colorscale_setting_lowest_and_highest_homologies() (in module homologyviz.plotter) sample_from_truncated_colorscale() (in module homologyviz.plotter) save_uploaded_file() (in module homologyviz.callbacks) T tail_width (homologyviz.arrow.Arrow attribute) timeout_seconds (homologyviz.callbacks.HeartBeatsParameters attribute) toggle_scale_bar() (in module homologyviz.plotter) U update_dna_sequence_annotations() (in module homologyviz.callbacks) update_gb_dataframe_custom_name() (in module homologyviz.callbacks) update_genes_annotations() (in module homologyviz.callbacks) update_homology_regions() (in module homologyviz.callbacks) update_minimum_homology_length() (in module homologyviz.callbacks) update_scale_bar() (in module homologyviz.callbacks) X x1 (homologyviz.arrow.Arrow attribute) x2 (homologyviz.arrow.Arrow attribute) x_coordinates (homologyviz.rectangle_bezier.RectangleCurveHeight attribute) x_points_bezier_vertical() (homologyviz.rectangle_bezier.RectangleCurveHeight method) Y y (homologyviz.arrow.Arrow attribute) y_coordinates (homologyviz.rectangle_bezier.RectangleCurveHeight attribute) y_points_bezier_vertical() (homologyviz.rectangle_bezier.RectangleCurveHeight method)