Package index • ctasapp

All functions

Input_BMI(): Create ctas input for screening weight categories from VS
Input_Labs(): Create ctas input from SDTM LB domain
Input_RS(): Create ctas input from SDTM RS oncology domain
Input_VS(): Create ctas input from SDTM VS domain
aggregate_results(): Aggregate uploaded results by removing timeseries_id
apply_config(): Apply configuration to package runtime state
arrange_timepoints(): Arrange visit names into clinically meaningful order
combine_ctas_input(): Combine multiple ctas input lists
encode_categorical(): One-hot encode a categorical variable
generate_sample_csv(): Generate sample upload CSV files
get_default_features(): Get default features from configuration
get_param_icons(): Get parameter type icon mapping from configuration
get_plot_visit_levels(): Compute x-axis visit levels for categorical/bar plots
get_query_colors(): Get query dot colours from configuration
get_score_breaks(): Get score breaks from configuration
get_score_colors_plot(): Get score colours for plots from configuration
get_score_colors_table(): Get score colours for tables from configuration
get_score_colors_table_text(): Get score text colours for tables from configuration
inject_missingness(): Inject random missingness into LB data for specific site/parameter combos
load_config(): Load app configuration from a YAML file
mod_DataInput_server(): Data Input Module - Server
mod_DataInput_ui(): Data Input Module - UI
mod_FieldDetail_server(): Field Detail Module - Server
mod_FieldDetail_ui(): Field Detail Module - UI
normalize_by_range(): Normalize values by reference range
plot_bar(): Plot single-timepoint categorical data as a bar chart
plot_categorical(): Plot categorical timeseries as alluvial diagram
plot_timeseries(): Plot numeric timeseries for one or more parameters
prepare_measures(): Prepare measures table from ctas input and results
prepare_score_table(): Prepare wide score table for a single parameter
prepare_score_table_multi(): Prepare wide score table for multiple parameter IDs
prepare_ts_data(): Prepare timeseries data for outlier sites
prepare_ts_data_multi(): Prepare timeseries data for outlier sites (multiple parameters)
ratio_missing_over_time(): Running ratio of missing values over time
read_upload_file(): Read a single uploaded file into a data frame
recalculate_timepoint_rank(): Recalculate timepoint rank as positional integer
recompute_max_score(): Recompute max_score in measures using a subset of ctas features
reconstruct_from_upload(): Reconstruct ctas data structures from flat upload files
run_ctas_app(): Run the ctas Shiny App
sample_ctas_data: Sample ctas input data
sample_ctas_results: Sample ctas analysis results
sample_sdtm_data: Sample SDTM-derived ctas input data
sample_sdtm_results: Sample SDTM-derived ctas analysis results
SCORE_BREAKS SCORE_COLORS_PLOT SCORE_COLORS_TABLE SCORE_COLORS_TABLE_TEXT: Score colour constants
score_to_color(): Map a numeric score to its graduated colour
simulate_query_data(): Simulate clinical query data for a ctas input dataset
validate_upload_crossfile(): Cross-validate uploaded files
validate_upload_input(): Validate uploaded input file
validate_upload_queries(): Validate uploaded queries file
validate_upload_results(): Validate uploaded results file
validate_upload_untransformed(): Validate uploaded untransformed file