Function reference • AmyloGraph

All functions
`AGID_button()`	Generate AGID buttons
`GoogleAnalytics()`	Add Google Analytics to shiny app
`HTML_download_handler()`	Handle download of AmyloGraph network to HTML
`XGMML_download_handler()`	Handle download of AmyloGraph data to XGMML
`add_none()`	Add NULL to choices
`add_sequence_info()`	Add sequence info
`ag_colnames()`	Find AmyloGraph column names in data
`ag_data_interactions`	AmyloGraph interactions list
`ag_data_nodes`	Build list of proteins from interactions list
`ag_data_proteins`	AmyloGraph proteins list
`ag_data_references`	AmyloGraph references list
`ag_option()`	Extract AmyloGraph option
`citify()`	Generate paper citation
`collect_tags()`	Collect button tags
`color_by_attribute()`	Add colors depending on attribute value
`contains_motif()`	Check whether sequences fit motif
`correct_motif()`	Check motif correctness
`count_unique_interactors()` `count_unique_interactees()`	Count unique interacting proteins
`count_interactions()`	Count interactions for a protein
`define_button()`	Define a button type
`deparse_chains()`	Revert chain tibbles to strings
`empty_buffer()`	Flush chain reader buffer
`filter_by_attribute()`	Filter by an attribute
`filter_by_motif()`	Filter by motif
`group_by_attribute()`	Group data by attribute value
`if_null_else()`	Execute code if not NULL
`index_line()`	Create a line of indices
`invert_names()`	Swap values and names
`is_node_selected()`	Check if node is selected
`label_and_order()`	Label and reorder a vector
`linkify_doi()`	Wrap DOI in a link
`linkify_uniprot()`	Wrap UniProt ID in a link
`load_js_code()`	Read JavaScript code from file
`markdown_ag_version()`	Format AmyloGraph version into human-friendly string
`markdown_description()` `markdown_faq()` `markdown_download()` `markdown_citation()` `markdown_contact()` `markdown_acknowledgements()` `markdown_yttutorial()` `markdown_images()`	Access AmyloGraph section as a string
`observe_download_buttons()` `observe_deselect_buttons()`	Observe buttons to disable/enable them
`observe_deselecting_all()`	Remove selections in a table
`observe_edges_change()`	Observes graph edges changing
`observe_filter_active()`	Toggle active state of a filter checkbox
`observe_interaction_selection()`	Display "Single interaction" tab on selection
`observe_moving_selection()`	Copy selections in subtables to main table
`observe_node_selection()`	Display single protein panel on selection
`observe_select_in_table_button()`	Observe "Transfer selection" button
`observe_selecting_all()`	Select all rows in a table
`patternize_motif()`	Upgrade motif to detect ambiguous letters
`pluralize()`	Return plural or singular form
`prettify_chains()`	Present chains in human-friendly format
`prettify_sequence_output()`	Present sequence in human-friendly format
`reactive_allow_selection_transfer()`	Verify if "transfer selection" allowed
`reactive_base_data()`	Generate base tabular data
`reactive_graph_data()`	Generate graph data
`reactive_node_positions()`	Retrieve node positions in a network
`reactive_selected_node_label()`	Access label of currently selected protein
`reactive_selection_config()`	Construct DT selection config
`reactive_subtable_data()`	Build table data for single protein
`reactive_table_data()`	Build table data
`read_chains()`	Parse chain sequence data
`render_network()`	Render visNetwork graph
`render_num_interactions_by_paper()`	Render a plot of interaction count by paper
`render_num_interactions_by_protein()`	Render a table of interaction count by protein
`render_protein_info()`	Render list of protein sources
`safe_seq()`	Safely create a sequence of numbers
`select_graph_columns()`	Select columns relevant to graph data
`sequence_indices()`	Index along a sequence
`sequence_to_lines()`	Split sequence into lines
`table_download_handler()`	Handle download of AmyloGraph data
`text_label_attribute()`	Access human-readable attribute label
`text_question_attribute()`	Access human-readable question text
`toggle_state_and_css()`	Enable/disable element with CSS styling
`visAGNetwork()`	Create visNetwork with AmyloGraph defaults
`visResetEdges()`	Clear and update edges in a graph
`visToggleNodes()`	Reselect a node in a graph

Reference

All functions