FreesearchR/reference/index.md

Package index

All functions

• FreesearchR_palette()

  Use the FreesearchR colors

• FreesearchR_theme()

  Custom theme based on unity

• add_class_icon()

  Convert class grid column to icon

• add_sparkline()

  Add sparkline to datagrid

• align_axes()

  Aligns axes between plots

• all_but()

  Select all from vector but

• append_column()

  Append a column to a data.frame

• append_list()

  Append list with named index

• apply_labels()

  Apply a named label vector to a data frame

• argsstring2list()

  Convert string of arguments to list of arguments

• available_plots()

  Implemented functions

• baseline_table()

  Print a flexible baseline characteristics table

• check_app_version()

  Run a startup version check and return a banner UI element

• class_icons()

  Get data class icons

• clean_common_axis()

  Extract and clean axis ranges

• clean_date()

  Attempts at applying uniform date format

• clean_sep()

  gsub wrapper for piping with default values for separator substituting

• collapse_spaces()

  Substitue spaces/tabs with single space excluding text within quotes

• colorSelectInput() :

  A selectizeInput customized for named vectors of color names supported by generate_colors

• columnSelectInput()

  A selectizeInput customized for data frames with column labels

• compare_missings()

  Pairwise comparison of missings across covariables

• continuous_colors()

  Create a Continuous Color Function from a Palette

• contrast_text()

  Contrast Text Color

• corr_pairs_validate()

  Correlation pairs validation

• correlation_pairs()

  Determine significant correlations in the data set

• create_column_ui()

  create_column_server()

  allowed_operations()

  modal_create_column()

  winbox_create_column()

  Create new column

• create_baseline()

  Create a baseline table

• create_log_tics()

  Create summetric log ticks

• create_overview_datagrid()

  Create a data overview datagrid

• cut_variable_ui()

  cut_variable_server()

  modal_cut_variable()

  Module to Convert Numeric to Factor

• cut_methods()

  Library of cut methods with descriptions

• cut_var()

  Extended cutting function with fall-back to the native base::cut

• data_correlations_ui()

  data_correlations_server()

  Data correlations evaluation module

• data_missings_ui()

  data_missings_server()

  Data correlations evaluation module

• data_visuals_ui()

  data_visuals_server()

  create_plot()

  plot_bar()

  plot_bar_single()

  plot_box()

  plot_box_single()

  plot_hbars()

  plot_likert()

  plot_ridge()

  sankey_ready()

  plot_sankey()

  plot_scatter()

  plot_violin()

  Data correlations evaluation module

• data_summary_ui()

  data_summary_server()

  Data summary module

• data_description()

  Ultra short data dascription

• data_summary_gather()

  Data summary for printing visual summary

• data_type()

  Data type assessment.

• data_type_filter()

  Filter function to filter data set by variable type

• data_types()

  Recognised data types from data_type

• default_format_arguments()

  Defaults qmd formats

• default_parsing()

  Default data parsing

• detect_delimiter()

  Detect delimiters in string based on allowed delimiters

• dim_change_call()

  Dimensions validation

• .build_version_alert()

  Build a shinyWidgets::alert() UI element for the version banner

• .get_latest_github_version()

  Fetch the latest release version from a GitHub repository

• .has_internet()

  Check internet connectivity

• .resolve_app_version()

  Resolve the current app version

• drop_empty_event()

  Drop empty events from REDCap export

• expression_string()

  Deparses expression as string, substitutes native pipe and adds assign

• extract_labels()

  Extract column labels from a data frame

• factor_new_levels_labels()

  Simple function to apply new levels and/or labels to factor

• factorize()

  Factorize variables in data.frame

• file_export()

  Title

• format_writer()

  Merges list of named arguments for qmd header generation

• generate_colors()

  Generate N Colors from a Specified Color Palette

• get_data_packages()

  Get packages containing datasets

• get_dimensions()

  Extension of the helper function from datamods

• get_fun_options()

  Get the function options based on the selected function description

• get_input_params()

  Get the function parameters based on the selected function description

• get_label()

  Print label, and if missing print variable name for plots

• get_list_elements()

  Subset elements from list of lists

• get_plot_options()

  Get the function options based on the selected function description

• get_var_icon()

  Easily get variable icon based on data type or class

• getfun()

  Wrapper function to get function from character vector referring to function from namespace. Passed to 'do.call()'

• gg_theme_export()

  GGplot default theme for plotting export objects

• gg_theme_shiny()

  GGplot default theme for plotting in Shiny

• ggeulerr()

  Area proportional venn diagrams

• grepl_fix()

  Matches pattern to vector based on match type

• if_not_missing()

  Return if available

• import_delim()

  import_xls()

  import_ods()

  import_dta()

  import_rds()

  Wrapper to ease data file import

• import_file_ui()

  import_file_server()

  Import data from a file

• import_file_demo_app()

  Test app for the import_file module

• import_globalenv_ui()

  import_globalenv_server()

  Import data from an Environment

• index_embed()

  Split vector by an index and embed addition

• is_any_class()

  Test class

• is_consecutive()

  Checks if elements in vector are equally spaced as indication of ID

• is_datetime()

  Test is date/datetime/time

• is_identical_to_previous()

  Test if element is identical to the previous

• is_splittable()

  Determine if any variable in data frame character and contains recognized delimiters

• is_valid_redcap_url()

  Test if url is valid format for REDCap API

• is_valid_token()

  Validate REDCap token

• label_report()

  Print a tidy summary of column labels

• landing_page_ui()

  Tag list of elements for the FreesearchR landing page

• launch_FreesearchR()

  Easily launch the FreesearchR app

• limit_data_size()

  Limit the allowed data set size by number of cells

• limit_log()

  Easily round log scale limits for nice plots

• line_break()

  Line breaking at given number of characters for nicely plotting labels

• list_pkg_data()

  List dataset contained in a package

• make_validation()

  Create validation data.frame

• make_validation_alerts()

  Create alert from validation data.frame

• mcar_validate()

  MCAR validation based on a gtsummary table bady

• merge_expression()

  Merge list of expressions

• merge_long()

  Wrapper to pivot gtsummary table data to long for plotting

• missing_fraction()

  Get missingsness fraction

• missings_logic_across()

  Converting all variables to logicals by missing status

• missings_validate()

  Validate function of missingness in data

• modify_qmd()

  Wrapper to modify quarto file to render specific formats

• names2val()

  Set values as names and names as values

• obs_filter_validate()

  Observations filter test wrapper

• overview_vars()

  Create a data overview data.frame ready for sparklines

• pipe_string()

  Reduce character vector with the native pipe operator or character string

• plot(<tbl_regression>)

  Regression coef plot from gtsummary. Slightly modified to pass on arguments

• plot_euler()

  Easily plot euler diagrams

• plot_euler_single()

  Easily plot single euler diagrams

• plot_sankey_single()

  Beautiful sankey plot

• possible_functions()

  Get possible regression models

• possible_plots()

  Get possible regression models

• read_input()

  Flexible file import based on extension

• m_redcap_readUI()

  m_redcap_readServer()

  redcap_demo_app()

  Shiny module to browser and export REDCap data

• regression_model()

  regression_model_uv()

  regression_model_list()

  regression_model_uv_list()

  Create a regression model programatically

• regression_table()

  Create table of regression model

• regression_table_create()

  Create regression summary table

• remove_empty_attr()

  Remove empty/NA attributes

• remove_empty_cols()

  Removes columns with completenes below cutoff

• remove_nested_list()

  Very simple function to remove nested lists, like when uploading .rds

• repeated_instruments()

  Get names of repeated instruments

• restore_labels()

  Restore column labels using a reference data frame

• scale_fill_generate()

  scale_color_generate()

  Discrete and Continuous Fill Scale Using generate_colors

• selectInputIcon()

  Create a select input control with icon(s)

• selectPlotVariables()

  Wrapper for columnSelectInput

• separate_string()

  Separate string wide or long

• set_column_label()

  (Re)label columns in data.frame

• show_data()

  Display a table in a window

• simple_snake()

  Simplified version of the snakecase packages to_snake_case

• sort_by()

  Drop-in replacement for the base::sort_by with option to remove NAs

• specify_qmd_format()

  Specify format arguments to include in qmd header/frontmatter

• string_split_ui()

  string_split_server()

  modal_string_split()

  String split module based on tidyr::separate_

• subset_types()

  Easily subset by data type function

• supported_functions()

  Implemented functions

• supported_plots()

  Implemented functions

• symmetrical_scale_x_log10()

  Ensure symmetrical plot around 1 on a logarithmic x scale for ratio plots

• tbl_merge()

  A substitue to gtsummary::tbl_merge, that will use list names for the tab spanner names.

• type_icons()

  Get data type icons

• ui_elements()

  FreesearchR UI elements list

• unique_names()

  Make unique variable names

• unique_short()

  Create unique short names of character vector items based on index

• update_factor_ui()

  update_factor_server()

  modal_update_factor()

  winbox_update_factor()

  Module to Reorder the Levels of a Factor Variable

• update_variables_ui()

  update_variables_server()

  Select, rename and convert variables

• update_variables_datagrid()

  Modified from the datamods pacakge

• validate_redcap_filter()

  Validate a REDCap server-side filter string against a data dictionary

• validation_ui()

  validation_server()

  Validation module

• validation_lib()

  Validation library

• vars_filter_validate()

  Variable filter test wrapper

• vectorSelectInput()

  A selectizeInput customized for named vectors

• vertical_stacked_bars()

  Vertical stacked bar plot wrapper

• visual_summary_ui()

  visual_summary_server()

  modal_visual_summary()

  missings_apex_plot()

  visual_summary()

  Data correlations evaluation module

• wide2long()

  Alternative pivoting method for easily pivoting based on name pattern

• with_labels()

  Evaluate an expression while preserving column labels

• wrap_plot_list()

  Wrapping

• write_quarto()

  Wrapper to save data in RDS, load into specified qmd and render