Updated for new version

.gitignore

@@ -12,6 +12,7 @@ docs
 inst/doc
 app_dev
 app_stable
+app_test
 app
 page
 demo

CITATION.cff

@@ -7,17 +7,16 @@ cff-version: 1.2.0
 message: 'To cite package "FreesearchR" in publications use:'
 type: software
 license: AGPL-3.0-or-later
-title: 'FreesearchR: A free and open-source browser based data analysis tool for researchers
+title: 'FreesearchR: Easy data analysis for clinicians'
-  with publication ready output'
+version: 25.9.1
-version: 25.8.3
 doi: 10.5281/zenodo.14527429
 identifiers:
 - type: url
   value: https://app.FreesearchR.org/
-abstract: Easily evaluate and analysis clinical health data in your browser on a server
+abstract: Easily evaluate and analyse clinical health data in your browser, either
-  or on your own device. Import data from multiple sources, summarise, modify and
+  based on a hosted version or run on your own device. Import data from multiple sources,
-  visualise data and export key metrics and regression analysis results in a publication
+  summarise, modify and visualise data and create regression models. Export key metrics
-  ready format.
+  and regression analysis results in a publication ready document format.
 authors:
 - family-names: Damsbo
   given-names: Andreas Gammelgaard

NAMESPACE

@@ -19,6 +19,8 @@ export(clean_sep)
 export(columnSelectInput)
 export(compare_missings)
 export(contrast_text)
+export(corr_pairs_validate)
+export(correlation_pairs)
 export(create_baseline)
 export(create_column_server)
 export(create_column_ui)
@@ -80,6 +82,7 @@ export(m_redcap_readServer)
 export(m_redcap_readUI)
 export(make_validation)
 export(make_validation_alerts)
+export(mcar_validate)
 export(merge_expression)
 export(merge_long)
 export(missing_fraction)

NEWS.md

@@ -1,8 +1,8 @@
-# FreesearchR 25.8.3 - DEV
+# FreesearchR 25.9.1
 
 *NEW* Language has been revised to make the app more accessible and easier to understand.
 
-*NEW* Initial and very rudimentary translation for Danish and Swahili is introduced. Other languages can be added as well.
+*NEW* Foundations for introducing an internationalised UI has been introduced. Initial and very rudimentary translation for Danish and Swahili is included. Other languages can be added as well.
 
 *NEW* Alerts as to guide on select important steps and aspects are introduced. This is expected to expand.
 

R/app_version.R

@@ -1 +1 @@
-app_version <- function()'25.8.3'
+app_version <- function()'25.9.1'

R/hosted_version.R

@@ -1 +1 @@
-hosted_version <- function()'v25.8.3-250911'
+hosted_version <- function()'v25.9.1-250923'

SESSION.md

@@ -11,11 +11,11 @@
 |collate     |en_US.UTF-8                                |
 |ctype       |en_US.UTF-8                                |
 |tz          |Europe/Copenhagen                          |
-|date        |2025-09-10                                 |
+|date        |2025-09-23                                 |
 |rstudio     |2025.05.0+496 Mariposa Orchid (desktop)    |
 |pandoc      |3.6.4 @ /opt/homebrew/bin/ (via rmarkdown) |
 |quarto      |1.7.30 @ /usr/local/bin/quarto             |
-|FreesearchR |25.8.3.250910                              |
+|FreesearchR |25.9.1.250923                              |
                                                                                 
                                                                                 
 --------------------------------------------------------------------------------
@@ -43,7 +43,6 @@
 |cardx             |0.2.5         |2025-07-03 |CRAN (R 4.4.1) |
 |caTools           |1.18.3        |2024-09-04 |CRAN (R 4.4.1) |
 |cellranger        |1.1.0         |2016-07-27 |CRAN (R 4.4.0) |
-|cffr              |1.2.0         |2025-01-25 |CRAN (R 4.4.1) |
 |checkmate         |2.3.2         |2024-07-29 |CRAN (R 4.4.0) |
 |class             |7.3-23        |2025-01-01 |CRAN (R 4.4.1) |
 |classInt          |0.4-11        |2025-01-08 |CRAN (R 4.4.1) |
@@ -53,7 +52,6 @@
 |colorspace        |2.1-1         |2024-07-26 |CRAN (R 4.4.1) |
 |commonmark        |2.0.0         |2025-07-07 |CRAN (R 4.4.1) |
 |crayon            |1.5.3         |2024-06-20 |CRAN (R 4.4.1) |
-|curl              |6.4.0         |2025-06-22 |CRAN (R 4.4.1) |
 |data.table        |1.17.8        |2025-07-10 |CRAN (R 4.4.1) |
 |datamods          |1.5.3         |2024-10-02 |CRAN (R 4.4.1) |
 |datawizard        |1.2.0         |2025-07-17 |CRAN (R 4.4.1) |
@@ -84,7 +82,7 @@
 |foreach           |1.5.2         |2022-02-02 |CRAN (R 4.4.0) |
 |foreign           |0.8-90        |2025-03-31 |CRAN (R 4.4.1) |
 |Formula           |1.2-5         |2023-02-24 |CRAN (R 4.4.1) |
-|FreesearchR       |25.8.3        |NA         |NA             |
+|FreesearchR       |25.9.1        |NA         |NA             |
 |fs                |1.6.6         |2025-04-12 |CRAN (R 4.4.1) |
 |gdtools           |0.4.2         |2025-03-27 |CRAN (R 4.4.1) |
 |generics          |0.1.4         |2025-05-09 |CRAN (R 4.4.1) |
@@ -112,16 +110,18 @@
 |iterators         |1.0.14        |2022-02-05 |CRAN (R 4.4.1) |
 |jquerylib         |0.1.4         |2021-04-26 |CRAN (R 4.4.0) |
 |jsonlite          |2.0.0         |2025-03-27 |CRAN (R 4.4.1) |
-|jsonvalidate      |1.5.0         |2025-02-07 |CRAN (R 4.4.1) |
 |KernSmooth        |2.23-26       |2025-01-01 |CRAN (R 4.4.1) |
 |keyring           |1.4.1         |2025-06-15 |CRAN (R 4.4.1) |
 |knitr             |1.50          |2025-03-16 |CRAN (R 4.4.1) |
+|labeling          |0.4.3         |2023-08-29 |CRAN (R 4.4.1) |
 |later             |1.4.2         |2025-04-08 |CRAN (R 4.4.1) |
 |lattice           |0.22-7        |2025-04-02 |CRAN (R 4.4.1) |
 |lifecycle         |1.0.4         |2023-11-07 |CRAN (R 4.4.1) |
+|litedown          |0.7           |2025-04-08 |CRAN (R 4.4.1) |
 |lme4              |1.1-37        |2025-03-26 |CRAN (R 4.4.1) |
 |lubridate         |1.9.4         |2024-12-08 |CRAN (R 4.4.1) |
 |magrittr          |2.0.3         |2022-03-30 |CRAN (R 4.4.1) |
+|markdown          |2.0           |2025-03-23 |CRAN (R 4.4.1) |
 |MASS              |7.3-65        |2025-02-28 |CRAN (R 4.4.1) |
 |Matrix            |1.7-3         |2025-03-11 |CRAN (R 4.4.1) |
 |memoise           |2.0.1         |2021-11-26 |CRAN (R 4.4.0) |
@@ -165,7 +165,6 @@
 |R6                |2.6.1         |2025-02-15 |CRAN (R 4.4.1) |
 |ragg              |1.4.0         |2025-04-10 |CRAN (R 4.4.1) |
 |rankinPlot        |1.1.0         |2023-01-30 |CRAN (R 4.4.0) |
-|rappdirs          |0.3.3         |2021-01-31 |CRAN (R 4.4.1) |
 |rbibutils         |2.3           |2024-10-04 |CRAN (R 4.4.1) |
 |RColorBrewer      |1.1-3         |2022-04-03 |CRAN (R 4.4.1) |
 |Rcpp              |1.1.0         |2025-07-02 |CRAN (R 4.4.1) |
@@ -220,8 +219,9 @@
 |usethis           |3.1.0         |2024-11-26 |CRAN (R 4.4.1) |
 |utf8              |1.2.6         |2025-06-08 |CRAN (R 4.4.1) |
 |uuid              |1.2-1         |2024-07-29 |CRAN (R 4.4.1) |
-|V8                |6.0.6         |2025-08-18 |CRAN (R 4.4.1) |
 |vctrs             |0.6.5         |2023-12-01 |CRAN (R 4.4.0) |
+|viridis           |0.6.5         |2024-01-29 |CRAN (R 4.4.0) |
+|viridisLite       |0.4.2         |2023-05-02 |CRAN (R 4.4.1) |
 |vroom             |1.6.5         |2023-12-05 |CRAN (R 4.4.0) |
 |withr             |3.0.2         |2024-10-28 |CRAN (R 4.4.1) |
 |writexl           |1.5.4         |2025-04-15 |CRAN (R 4.4.1) |

man/corr_pairs_validate.Rd

@@ -0,0 +1,20 @@
+% Generated by roxygen2: do not edit by hand
+% Please edit documentation in R/validation.R
+\name{corr_pairs_validate}
+\alias{corr_pairs_validate}
+\title{Correlation pairs validation}
+\usage{
+corr_pairs_validate(data)
+}
+\arguments{
+\item{data}{data.frame}
+}
+\value{
+data.frame
+}
+\description{
+Correlation pairs validation
+}
+\examples{
+# correlation_pairs(mtcars) |> corr_pairs_validate()
+}

man/correlation_pairs.Rd

@@ -0,0 +1,24 @@
+% Generated by roxygen2: do not edit by hand
+% Please edit documentation in R/correlations-module.R
+\name{correlation_pairs}
+\alias{correlation_pairs}
+\title{Determine significant correlations in the data set}
+\usage{
+correlation_pairs(data, threshold = 0.8)
+}
+\arguments{
+\item{data}{data.frame}
+
+\item{threshold}{correlation threshold}
+}
+\value{
+data.frame
+}
+\description{
+Determine significant correlations in the data set
+}
+\examples{
+correlation_pairs(mtcars)
+correlation_pairs(mtcars,.9)
+correlation_pairs(mtcars[c(1:4),])
+}

man/make_validation.Rd

@@ -21,15 +21,16 @@ Create validation data.frame
 i18n <- shiny.i18n::Translator$new(translation_csvs_path = here::here("inst/translations"))
 i18n$set_translation_language("en")
 df_original <- mtcars
-df_original[1,2:4] <- NA
+df_original[1, 2:4] <- NA
-df_obs <- df_original |> dplyr::filter(carb==4)
+df_obs <- df_original |> dplyr::filter(carb == 4)
 df_vars <- df_original[1:7]
 val <- purrr::map2(
   .x = validation_lib(),
   .y = list(
-  list(x = df_original, y = df_obs),
+    list(x = df_original, y = df_obs),
-  list(x = df_original, y = df_vars),
+    list(x = df_original, y = df_vars),
-  list(x=df_original)),
+    list(x = df_original)
+  ),
   make_validation
 )
 val |> make_validation_alerts()

man/mcar_validate.Rd

@@ -0,0 +1,19 @@
+% Generated by roxygen2: do not edit by hand
+% Please edit documentation in R/validation.R
+\name{mcar_validate}
+\alias{mcar_validate}
+\title{MCAR validation based on a gtsummary table bady}
+\usage{
+mcar_validate(data, outcome = NULL)
+}
+\arguments{
+\item{data}{data}
+
+\item{outcome}{outcome variable}
+}
+\value{
+data.frame
+}
+\description{
+MCAR validation based on a gtsummary table bady
+}

man/missings_validate.Rd

@@ -17,6 +17,6 @@ Validate function of missingness in data
 }
 \examples{
 df <- mtcars
-df[1,2:4] <- NA
+df[1, 2:4] <- NA
 missings_validate(df)
 }