mirror of
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updated docs
This commit is contained in:
parent
a3791af81c
commit
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16 changed files with 1311 additions and 1298 deletions
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@ -1,7 +1,7 @@
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########
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#### Current file: /Users/au301842/FreesearchR/app/libs.R
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#### Current file: /Users/au301842/FreesearchR/app/libs.R
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########
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library(shiny)
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@ -40,20 +40,20 @@ library(rlang)
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########
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#### Current file: /Users/au301842/FreesearchR/app/functions.R
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#### Current file: /Users/au301842/FreesearchR/app/functions.R
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########
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########
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#### Current file: /Users/au301842/FreesearchR/R//app_version.R
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#### Current file: /Users/au301842/FreesearchR/R//app_version.R
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########
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app_version <- function()'25.7.2'
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########
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#### Current file: /Users/au301842/FreesearchR/R//baseline_table.R
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#### Current file: /Users/au301842/FreesearchR/R//baseline_table.R
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########
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#' Print a flexible baseline characteristics table
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@ -138,7 +138,7 @@ create_baseline <- function(data, ..., by.var, add.p = FALSE, add.overall = FALS
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########
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#### Current file: /Users/au301842/FreesearchR/R//contrast_text.R
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#### Current file: /Users/au301842/FreesearchR/R//contrast_text.R
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########
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#' @title Contrast Text Color
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@ -194,7 +194,7 @@ contrast_text <- function(background,
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########
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#### Current file: /Users/au301842/FreesearchR/R//correlations-module.R
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#### Current file: /Users/au301842/FreesearchR/R//correlations-module.R
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########
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#' Data correlations evaluation module
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@ -339,7 +339,7 @@ sentence_paste <- function(data, and.str = "and") {
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########
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#### Current file: /Users/au301842/FreesearchR/R//create-column-mod.R
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#### Current file: /Users/au301842/FreesearchR/R//create-column-mod.R
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########
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#' @title Create new column
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@ -782,7 +782,7 @@ make_choices_with_infos <- function(data) {
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########
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#### Current file: /Users/au301842/FreesearchR/R//custom_SelectInput.R
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#### Current file: /Users/au301842/FreesearchR/R//custom_SelectInput.R
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########
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#' A selectizeInput customized for data frames with column labels
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@ -976,7 +976,7 @@ vectorSelectInput <- function(inputId,
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########
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#### Current file: /Users/au301842/FreesearchR/R//cut-variable-dates.R
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#### Current file: /Users/au301842/FreesearchR/R//cut-variable-dates.R
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########
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#' Extended cutting function with fall-back to the native base::cut
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@ -1595,7 +1595,7 @@ plot_histogram <- function(data, column=NULL, bins = 30, breaks = NULL, color =
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########
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#### Current file: /Users/au301842/FreesearchR/R//data_plots.R
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#### Current file: /Users/au301842/FreesearchR/R//data_plots.R
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########
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# source(here::here("functions.R"))
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@ -2445,7 +2445,7 @@ clean_common_axis <- function(p, axis) {
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########
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#### Current file: /Users/au301842/FreesearchR/R//data-import.R
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#### Current file: /Users/au301842/FreesearchR/R//data-import.R
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########
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data_import_ui <- function(id) {
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@ -2602,7 +2602,7 @@ data_import_demo_app <- function() {
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########
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#### Current file: /Users/au301842/FreesearchR/R//data-summary.R
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#### Current file: /Users/au301842/FreesearchR/R//data-summary.R
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########
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#' Data summary module
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@ -3000,7 +3000,7 @@ get_var_icon <- function(data,class.type=c("class","type")){
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########
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#### Current file: /Users/au301842/FreesearchR/R//datagrid-infos-mod.R
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#### Current file: /Users/au301842/FreesearchR/R//datagrid-infos-mod.R
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########
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@ -3349,7 +3349,7 @@ construct_col_summary <- function(data) {
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########
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#### Current file: /Users/au301842/FreesearchR/R//helpers.R
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#### Current file: /Users/au301842/FreesearchR/R//helpers.R
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########
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#' Wrapper function to get function from character vector referring to function from namespace. Passed to 'do.call()'
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@ -4023,14 +4023,14 @@ simple_snake <- function(data){
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########
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#### Current file: /Users/au301842/FreesearchR/R//hosted_version.R
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#### Current file: /Users/au301842/FreesearchR/R//hosted_version.R
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########
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hosted_version <- function()'v25.7.2-250704'
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hosted_version <- function()'v25.7.2-250722'
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########
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#### Current file: /Users/au301842/FreesearchR/R//html_dependency_freesearchr.R
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#### Current file: /Users/au301842/FreesearchR/R//html_dependency_freesearchr.R
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########
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html_dependency_FreesearchR <- function() {
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@ -4045,7 +4045,7 @@ html_dependency_FreesearchR <- function() {
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########
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#### Current file: /Users/au301842/FreesearchR/R//import-file-ext.R
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#### Current file: /Users/au301842/FreesearchR/R//import-file-ext.R
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########
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#' @title Import data from a file
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@ -4655,7 +4655,7 @@ import_file_demo_app <- function() {
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########
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#### Current file: /Users/au301842/FreesearchR/R//launch_FreesearchR.R
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#### Current file: /Users/au301842/FreesearchR/R//launch_FreesearchR.R
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########
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#' Easily launch the FreesearchR app
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@ -4686,7 +4686,7 @@ launch_FreesearchR <- function(...){
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########
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#### Current file: /Users/au301842/FreesearchR/R//missings-module.R
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#### Current file: /Users/au301842/FreesearchR/R//missings-module.R
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########
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#' Data correlations evaluation module
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@ -4835,7 +4835,7 @@ compare_missings <- function(data,by_var){
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########
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#### Current file: /Users/au301842/FreesearchR/R//plot_box.R
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#### Current file: /Users/au301842/FreesearchR/R//plot_box.R
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########
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#' Beautiful box plot(s)
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@ -4934,7 +4934,7 @@ plot_box_single <- function(data, pri, sec=NULL, seed = 2103) {
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########
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#### Current file: /Users/au301842/FreesearchR/R//plot_euler.R
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#### Current file: /Users/au301842/FreesearchR/R//plot_euler.R
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########
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#' Area proportional venn diagrams
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@ -5075,7 +5075,7 @@ plot_euler_single <- function(data) {
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########
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#### Current file: /Users/au301842/FreesearchR/R//plot_hbar.R
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#### Current file: /Users/au301842/FreesearchR/R//plot_hbar.R
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########
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#' Nice horizontal stacked bars (Grotta bars)
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@ -5175,7 +5175,7 @@ vertical_stacked_bars <- function(data,
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########
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#### Current file: /Users/au301842/FreesearchR/R//plot_ridge.R
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#### Current file: /Users/au301842/FreesearchR/R//plot_ridge.R
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########
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#' Plot nice ridge plot
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@ -5209,7 +5209,7 @@ plot_ridge <- function(data, x, y, z = NULL, ...) {
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########
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#### Current file: /Users/au301842/FreesearchR/R//plot_sankey.R
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#### Current file: /Users/au301842/FreesearchR/R//plot_sankey.R
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########
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#' Readying data for sankey plot
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########
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#### Current file: /Users/au301842/FreesearchR/R//plot_scatter.R
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#### Current file: /Users/au301842/FreesearchR/R//plot_scatter.R
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########
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#' Beautiful violin plot
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########
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#### Current file: /Users/au301842/FreesearchR/R//plot_violin.R
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#### Current file: /Users/au301842/FreesearchR/R//plot_violin.R
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########
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#' Beatiful violin plot
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########
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#### Current file: /Users/au301842/FreesearchR/R//plot-download-module.R
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#### Current file: /Users/au301842/FreesearchR/R//plot-download-module.R
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########
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plot_download_ui <- regression_ui <- function(id, ...) {
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########
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#### Current file: /Users/au301842/FreesearchR/R//redcap_read_shiny_module.R
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#### Current file: /Users/au301842/FreesearchR/R//redcap_read_shiny_module.R
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########
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#' Shiny module to browser and export REDCap data
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########
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#### Current file: /Users/au301842/FreesearchR/R//regression_model.R
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#### Current file: /Users/au301842/FreesearchR/R//regression_model.R
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########
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#' Create a regression model programatically
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########
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#### Current file: /Users/au301842/FreesearchR/R//regression_plot.R
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#### Current file: /Users/au301842/FreesearchR/R//regression_plot.R
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########
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#' Regression coef plot from gtsummary. Slightly modified to pass on arguments
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########
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#### Current file: /Users/au301842/FreesearchR/R//regression_table.R
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#### Current file: /Users/au301842/FreesearchR/R//regression_table.R
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########
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#' Create table of regression model
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########
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#### Current file: /Users/au301842/FreesearchR/R//regression-module.R
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#### Current file: /Users/au301842/FreesearchR/R//regression-module.R
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########
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### On rewriting this module
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########
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#### Current file: /Users/au301842/FreesearchR/R//report.R
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#### Current file: /Users/au301842/FreesearchR/R//report.R
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########
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#' Split vector by an index and embed addition
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########
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#### Current file: /Users/au301842/FreesearchR/R//syntax_highlight.R
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#### Current file: /Users/au301842/FreesearchR/R//syntax_highlight.R
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########
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## Inpiration:
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########
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#### Current file: /Users/au301842/FreesearchR/R//theme.R
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#### Current file: /Users/au301842/FreesearchR/R//theme.R
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########
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#' Custom theme based on unity
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########
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#### Current file: /Users/au301842/FreesearchR/R//ui_elements.R
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#### Current file: /Users/au301842/FreesearchR/R//ui_elements.R
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########
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#' FreesearchR UI elements list
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########
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#### Current file: /Users/au301842/FreesearchR/R//update-factor-ext.R
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#### Current file: /Users/au301842/FreesearchR/R//update-factor-ext.R
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########
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########
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#### Current file: /Users/au301842/FreesearchR/R//update-variables-ext.R
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#### Current file: /Users/au301842/FreesearchR/R//update-variables-ext.R
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########
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#' Select, rename and convert variables
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########
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#### Current file: /Users/au301842/FreesearchR/R//visual_summary.R
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#### Current file: /Users/au301842/FreesearchR/R//visual_summary.R
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########
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#' Data correlations evaluation module
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########
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#### Current file: /Users/au301842/FreesearchR/R//wide2long.R
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#### Current file: /Users/au301842/FreesearchR/R//wide2long.R
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########
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#' Alternative pivoting method for easily pivoting based on name pattern
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########
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#### Current file: /Users/au301842/FreesearchR/dev/header_include.R
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#### Current file: /Users/au301842/FreesearchR/dev/header_include.R
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########
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header_include <- function(){
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########
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#### Current file: /Users/au301842/FreesearchR/dev/dev_banner.R
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#### Current file: /Users/au301842/FreesearchR/dev/dev_banner.R
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########
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dev_banner <- function(){
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########
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#### Current file: /Users/au301842/FreesearchR/app/ui.R
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#### Current file: /Users/au301842/FreesearchR/app/ui.R
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########
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# ns <- NS(id)
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@ -10561,7 +10561,7 @@ ui <- bslib::page_fixed(
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########
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#### Current file: /Users/au301842/FreesearchR/app/server.R
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#### Current file: /Users/au301842/FreesearchR/app/server.R
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########
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data(mtcars)
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@ -10771,18 +10771,16 @@ server <- function(input, output, session) {
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shiny::updateActionButton(inputId = "modal_visual_overview", disabled = TRUE)
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shiny::updateActionButton(inputId = "act_eval", disabled = TRUE)
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bslib::nav_hide(id = "main_panel",
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target = "nav_visuals")
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# bslib::nav_hide(id = "main_panel",
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# target = "nav_visuals")
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} else {
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shiny::updateActionButton(inputId = "act_start", disabled = FALSE)
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shiny::updateActionButton(inputId = "modal_browse", disabled = FALSE)
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shiny::updateActionButton(inputId = "modal_visual_overview", disabled = FALSE)
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shiny::updateActionButton(inputId = "act_eval", disabled = FALSE)
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bslib::nav_show(id = "main_panel",
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target = "nav_visuals")
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# bslib::nav_show(id = "main_panel",
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# target = "nav_visuals")
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}
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})
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########
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#### Current file: /Users/au301842/FreesearchR/app/launch.R
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#### Current file: /Users/au301842/FreesearchR/app/launch.R
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########
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shinyApp(ui, server)
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# Welcome <img style="float: right;" src="FreesearchR-logo.png">
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# Welcome <img src="FreesearchR-logo.png" style="float: right;"/>
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This is the ***FreesearchR*** data analysis tool. We intend ***FreesearchR*** to be a free tool for easy data evaluation and analysis. If you need more advanced tools, start with ***FreesearchR*** and then you'll probably be better off using *R* or similar directly.
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This is the ***FreesearchR*** data analysis tool, a free tool for basic data evaluation and analysis. If you need more advanced tools, start with ***FreesearchR*** and then you'll probably be better off using *R* or similar directly.
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Here is a brief summary of the functions:
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With this tool you can:
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1. **Import data** from a spreadsheet/file on your machine, direct export from a REDCap server, sample data or data from a your local environment if run locally.
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1. **Import data** from a spreadsheet/file on your machine, directly from a [REDCap](https://projectredcap.org/ "Read more on the data capture tool REDCap") server, try it with sample data or access data directly [if run in R locally](https://agdamsbo.github.io/FreesearchR//#run-locally-on-your-own-machine "Read about running FreesearchR on your local machine")
|
||||
|
||||
1. **Data inspection** and **modification** like modifying variables or creating new (categorical from numeric or time data, or completely new variables from the data)
|
||||
2. **Prepare** data for analysis by filtering data, modifying variables or create new variables
|
||||
|
||||
1. **Evaluate data** using descriptive analyses methods and inspect cross-correlations
|
||||
3. **Evaluate data** using descriptive analyses methods and inspect cross-correlations as well as [missing observations](https://agdamsbo.github.io/FreesearchR/articles/missingness.html "Read more about missing data")
|
||||
|
||||
1. **Create and export simple, clean plots** for data overview and insights
|
||||
4. **Visualise data** by [creating simple, clean plots](https://agdamsbo.github.io/FreesearchR/articles/visuals.html "See available plot types") for overview and quick insights
|
||||
|
||||
1. **Create regression simple models** for even more advanced data analyses
|
||||
5. **Create simple regression models** for even more advanced data analyses
|
||||
|
||||
- Linear, dichotomous or ordinal logistic regression will be used depending on specified outcome variable
|
||||
|
||||
- Plot regression analysis coefficients
|
||||
6. **Download** results as a report, get the modified data set and save the code for learning and to reproduce the results later
|
||||
|
||||
- Evaluate model assumptions
|
||||
|
||||
1. **Export results**
|
||||
|
||||
- Descriptive and regression analyses results for MS Word or [LibreOffice](https://www.libreoffice.org/)
|
||||
|
||||
- Modified data with preserved metadata
|
||||
|
||||
- Code to recreate all steps locally
|
||||
|
||||
The full [project documentation is here](https://agdamsbo.github.io/FreesearchR/) where you'll find detailed description of the app and link to the source code! If you want to [share feedback, please follow this link to a simple survey](https://redcap.au.dk/surveys/?s=JPCLPTXYDKFA8DA8).
|
||||
The full [project documentation is here](https://agdamsbo.github.io/FreesearchR/) where you'll find detailed descriptions of the app and link to the source code! If you want to [share feedback, please follow this link to a simple survey](https://redcap.au.dk/surveys/?s=JPCLPTXYDKFA8DA8).
|
||||
|
|
|
|||
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