AMR Shiny dashboard application

Creates and returns a Shiny application for exploring antimicrobial resistance data and machine learning model results.

launchAMRDashboard(results_root = NULL, amrdata_root = NULL)

Arguments

results_root

File path to the root directory containing amRml model output results. If NULL (default), the application will attempt to use example data bundled with the package, where available.

amrdata_root

File path to the root directory containing amRdata annotation parquets (e.g. cluster_feature_COG.parquet, gene_names.parquet). If NULL (default), ~/amRdata/data is used when present; otherwise annotation-based features are disabled.

Value

A Shiny application object

Examples

if (interactive()) {
  app <- launchAMRDashboard()
  shiny::runApp(app)
}