ie_explore_continuous_flow: Explore an ir_isofiles object by measurement type

In isoexplorer: GUI Components to Explore Stable Isotope Data Files

Explore an ir_isofiles object by measurement type

Description

Focused apps for exploring an already-read ir_isofiles object one measurement type at a time: ie_explore_continuous_flow() / ie_explore_dual_inlet() / ie_explore_scans() each show that type's file-selector sidebar + plot, and ie_explore_metadata() shows just the selector table. The generated example code (navbar Show code) refers to the object by its variable_name. These take a fixed object only – for upload / folder monitoring / load-examples use ie_create_isofiles_server().

Usage

ie_explore_continuous_flow(
  isofiles,
  timezone = Sys.timezone(),
  options = list(),
  uiPattern = "/",
  enableBookmarking = "url",
  default_theme = app_themes(),
  initial_selection = FALSE,
  variable_name = NULL,
  detached = TRUE,
  launch = TRUE,
  log_level = "WARN"
)

ie_explore_dual_inlet(
  isofiles,
  timezone = Sys.timezone(),
  options = list(),
  uiPattern = "/",
  enableBookmarking = "url",
  default_theme = app_themes(),
  initial_selection = FALSE,
  variable_name = NULL,
  detached = TRUE,
  launch = TRUE,
  log_level = "WARN"
)

ie_explore_scans(
  isofiles,
  timezone = Sys.timezone(),
  options = list(),
  uiPattern = "/",
  enableBookmarking = "url",
  default_theme = app_themes(),
  initial_selection = FALSE,
  variable_name = NULL,
  detached = TRUE,
  launch = TRUE,
  log_level = "WARN"
)

ie_explore_metadata(
  isofiles,
  timezone = Sys.timezone(),
  options = list(),
  uiPattern = "/",
  enableBookmarking = "url",
  default_theme = app_themes(),
  initial_selection = FALSE,
  variable_name = NULL,
  detached = TRUE,
  launch = TRUE,
  log_level = "WARN"
)

Arguments

isofiles	the ir_isofiles object to explore (required)
timezone	timezone for datetime display
options	Named options that should be passed to the runApp call (these can be any of the following: "port", "launch.browser", "host", "quiet", "display.mode" and "test.mode"). You can also specify width and height parameters which provide a hint to the embedding environment about the ideal height/width for the app.
uiPattern	A regular expression that will be applied to each GET request to determine whether the ui should be used to handle the request. Note that the entire request path must match the regular expression in order for the match to be considered successful.
enableBookmarking	Can be one of "url", "server", or "disable". The default value, NULL, will respect the setting from any previous calls to enableBookmarking(). See enableBookmarking() for more information on bookmarking your app.
default_theme	default bslib Bootstrap 5 theme preset
initial_selection	what is selected on load, as a dplyr::filter() expression on the aggregated metadata: FALSE (the default) selects nothing, TRUE selects everything, and any other expression (e.g. grepl("std", file_name)) selects the matching files/analyses. See ie_file_server(). In detached mode the expression is re-evaluated in the separate process, so it must be self-contained (it cannot reference variables from your session).
variable_name	the name used for the object in the generated example code. Defaults to the deparsed expression you passed (so my_iso |> ie_explore_scans() uses "my_iso"); set it explicitly to override.
detached	if TRUE, the app is launched in a separate R process (via callr::r_bg(), the app handed over in a temporary .rds) and opened in your default browser, leaving the calling session free; closing the browser tab stops the app and the process (which is also killed if the calling session exits). Default FALSE.
launch	only relevant when detached = FALSE: if TRUE (the default) the app is run in the current session (blocking) with shiny::runApp(); if FALSE the shiny::shinyApp() object is returned unrun (for server deployment or manual launching). Ignored when detached = TRUE (a detached app is always run).
log_level	how verbosely the app logs; see ie_run_app() for the available levels. Defaults to "WARN" for the focused explorers.

Details

By default the app runs detached in a separate R process (see detached), so the calling session is not blocked, and it refuses to launch while a document is being rendered (knitr / Quarto), showing a message to run it interactively. These are thin wrappers over ie_run_app(), which manages detached / launch.

Value

the value of ie_run_app() for the chosen detached / launch: the callr::r_bg() process (detached), the shiny::runApp() result (in-session launch), or the shiny::shinyApp() object (launch = FALSE).

Functions

• ie_explore_dual_inlet(): focused app for the dual inlet plot.

• ie_explore_scans(): focused app for the scans plot.

• ie_explore_metadata(): focused app showing just the scans metadata selector table (handy for browsing/testing the selector).

Examples

if (interactive()) {
  # read the bundled isoreader2 examples (a mixed set of all types); each
  # explorer filters the object to its own measurement type
  iso <-
    isoreader2::ir_examples_folder() |>
    isoreader2::ir_find_isofiles() |>
    isoreader2::ir_read_isofiles()

  # each focused explorer opens the object in a detached browser app
  ie_explore_continuous_flow(iso)
  ie_explore_dual_inlet(iso)
  ie_explore_scans(iso)
  ie_explore_metadata(iso) # just the selector table

  # preselect some files and run blocking in the current session instead
  ie_explore_continuous_flow(
    iso,
    initial_selection = grepl("gc", file_name),
    detached = FALSE
  )
}

isoexplorer documentation built on Sept. 8, 2026, 1:07 a.m.