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ab189bf59a
| Author | SHA1 | Date | |
|---|---|---|---|
| ab189bf59a | |||
| f60930cc03 |
17 changed files with 1317 additions and 1290 deletions
1
.gitignore
vendored
1
.gitignore
vendored
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@ -15,3 +15,4 @@ app_stable
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app
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page
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demo
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visuals
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@ -361,7 +361,7 @@ references:
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authors:
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- family-names: Lüdecke
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given-names: Daniel
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email: d.luedecke@uke.de
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email: officialeasystats@gmail.com
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orcid: https://orcid.org/0000-0002-8895-3206
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- family-names: Makowski
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given-names: Dominique
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@ -409,7 +409,7 @@ references:
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authors:
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- family-names: Lüdecke
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given-names: Daniel
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email: d.luedecke@uke.de
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email: officialeasystats@gmail.com
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orcid: https://orcid.org/0000-0002-8895-3206
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- family-names: Makowski
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given-names: Dominique
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8
NEWS.md
8
NEWS.md
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@ -1,10 +1,14 @@
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# FreesearchR 25.7.2 - DEV
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# FreesearchR 25.7.3 - DEV
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- *NEW* preparing to automatically only show relevant tabs to simplify interface. NOT IMPLEMENTED YET
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# FreesearchR 25.7.2
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- *FIX* refining hiding drop downs. All JavaScript is now in separate file. Coded with GAI help from claude.ai.
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- *FIX* refined iconography and navigation
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- *NEW* preparing to automatically only show relevant tabs to simplify interface. NOT IMPLEMENTED YET
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- *FIX* updated intro and docs.
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# FreesearchR 25.7.1
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@ -1 +1 @@
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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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BIN
R/sysdata.rda
BIN
R/sysdata.rda
Binary file not shown.
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@ -379,7 +379,7 @@ ui_elements <- function(selection) {
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icon = bsicons::bs_icon("bounding-box"),
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bslib::layout_sidebar(
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sidebar = bslib::sidebar(
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shiny::uiOutput(outputId = "data_info_nochar", inline = TRUE),
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# shiny::uiOutput(outputId = "data_info_nochar", inline = TRUE),
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bslib::accordion(
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open = "acc_chars",
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multiple = FALSE,
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104
SESSION.md
104
SESSION.md
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@ -11,11 +11,11 @@
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|collate |en_US.UTF-8 |
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|ctype |en_US.UTF-8 |
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|tz |Europe/Copenhagen |
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|date |2025-07-03 |
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|date |2025-07-22 |
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|rstudio |2025.05.0+496 Mariposa Orchid (desktop) |
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|pandoc |3.6.4 @ /opt/homebrew/bin/ (via rmarkdown) |
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|quarto |1.7.30 @ /usr/local/bin/quarto |
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|FreesearchR |25.7.2.250703 |
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|FreesearchR |25.7.2.250722 |
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--------------------------------------------------------------------------------
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@ -30,7 +30,7 @@
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|attempt |0.3.1 |2020-05-03 |CRAN (R 4.4.1) |
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|backports |1.5.0 |2024-05-23 |CRAN (R 4.4.1) |
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|base64enc |0.1-3 |2015-07-28 |CRAN (R 4.4.1) |
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|bayestestR |0.15.3 |2025-04-28 |CRAN (R 4.4.1) |
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|bayestestR |0.16.1 |2025-07-01 |CRAN (R 4.4.1) |
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|bit |4.6.0 |2025-03-06 |CRAN (R 4.4.1) |
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|bit64 |4.6.0-1 |2025-01-16 |CRAN (R 4.4.1) |
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|bitops |1.0-9 |2024-10-03 |CRAN (R 4.4.1) |
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@ -41,8 +41,8 @@
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|bsicons |0.1.2 |2023-11-04 |CRAN (R 4.4.0) |
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|bslib |0.9.0 |2025-01-30 |CRAN (R 4.4.1) |
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|cachem |1.1.0 |2024-05-16 |CRAN (R 4.4.1) |
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|cards |0.6.0 |2025-04-11 |CRAN (R 4.4.1) |
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|cardx |0.2.4 |2025-04-12 |CRAN (R 4.4.1) |
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|cards |0.6.1 |2025-07-03 |CRAN (R 4.4.1) |
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|cardx |0.2.5 |2025-07-03 |CRAN (R 4.4.1) |
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|caTools |1.18.3 |2024-09-04 |CRAN (R 4.4.1) |
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|cellranger |1.1.0 |2016-07-27 |CRAN (R 4.4.0) |
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|cffr |1.2.0 |2025-01-25 |CRAN (R 4.4.1) |
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@ -53,14 +53,12 @@
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|cluster |2.1.8.1 |2025-03-12 |CRAN (R 4.4.1) |
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|codetools |0.2-20 |2024-03-31 |CRAN (R 4.4.1) |
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|colorspace |2.1-1 |2024-07-26 |CRAN (R 4.4.1) |
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|commonmark |1.9.5 |2025-03-17 |CRAN (R 4.4.1) |
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|commonmark |2.0.0 |2025-07-07 |CRAN (R 4.4.1) |
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|crayon |1.5.3 |2024-06-20 |CRAN (R 4.4.1) |
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|credentials |2.0.2 |2024-10-04 |CRAN (R 4.4.1) |
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|crosstalk |1.2.1 |2023-11-23 |CRAN (R 4.4.0) |
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|curl |6.2.2 |2025-03-24 |CRAN (R 4.4.1) |
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|data.table |1.17.0 |2025-02-22 |CRAN (R 4.4.1) |
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|curl |6.4.0 |2025-06-22 |CRAN (R 4.4.1) |
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|data.table |1.17.8 |2025-07-10 |CRAN (R 4.4.1) |
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|datamods |1.5.3 |2024-10-02 |CRAN (R 4.4.1) |
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|datawizard |1.0.2 |2025-03-24 |CRAN (R 4.4.1) |
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|datawizard |1.2.0 |2025-07-17 |CRAN (R 4.4.1) |
|
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|DEoptimR |1.1-3-1 |2024-11-23 |CRAN (R 4.4.1) |
|
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|desc |1.4.3 |2023-12-10 |CRAN (R 4.4.1) |
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|devtools |2.4.5 |2022-10-11 |CRAN (R 4.4.0) |
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@ -71,17 +69,16 @@
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|dplyr |1.1.4 |2023-11-17 |CRAN (R 4.4.0) |
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|DT |0.33 |2024-04-04 |CRAN (R 4.4.0) |
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|e1071 |1.7-16 |2024-09-16 |CRAN (R 4.4.1) |
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|easystats |0.7.4 |2025-02-06 |CRAN (R 4.4.1) |
|
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|effectsize |1.0.0 |2024-12-10 |CRAN (R 4.4.1) |
|
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|easystats |0.7.5 |2025-07-11 |CRAN (R 4.4.1) |
|
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|ellipsis |0.3.2 |2021-04-29 |CRAN (R 4.4.1) |
|
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|emmeans |1.11.1 |2025-05-04 |CRAN (R 4.4.1) |
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|emmeans |1.11.2 |2025-07-11 |CRAN (R 4.4.1) |
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|esquisse |2.1.0 |2025-02-21 |CRAN (R 4.4.1) |
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|estimability |1.5.1 |2024-05-12 |CRAN (R 4.4.0) |
|
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|eulerr |7.0.2 |2024-03-28 |CRAN (R 4.4.0) |
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|evaluate |1.0.3 |2025-01-10 |CRAN (R 4.4.1) |
|
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|evaluate |1.0.4 |2025-06-18 |CRAN (R 4.4.1) |
|
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|farver |2.1.2 |2024-05-13 |CRAN (R 4.4.1) |
|
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|fastmap |1.2.0 |2024-05-15 |CRAN (R 4.4.1) |
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|flextable |0.9.7 |2024-10-27 |CRAN (R 4.4.1) |
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|flextable |0.9.9 |2025-05-31 |CRAN (R 4.4.1) |
|
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|fontawesome |0.5.3 |2024-11-16 |CRAN (R 4.4.1) |
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|fontBitstreamVera |0.1.1 |2017-02-01 |CRAN (R 4.4.1) |
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|fontLiberation |0.1.0 |2016-10-15 |CRAN (R 4.4.1) |
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@ -93,22 +90,19 @@
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|FreesearchR |25.7.2 |NA |NA |
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|fs |1.6.6 |2025-04-12 |CRAN (R 4.4.1) |
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|gdtools |0.4.2 |2025-03-27 |CRAN (R 4.4.1) |
|
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|generics |0.1.3 |2022-07-05 |CRAN (R 4.4.1) |
|
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|gert |2.1.5 |2025-03-25 |CRAN (R 4.4.1) |
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|generics |0.1.4 |2025-05-09 |CRAN (R 4.4.1) |
|
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|ggalluvial |0.12.5 |2023-02-22 |CRAN (R 4.4.0) |
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|ggcorrplot |0.1.4.1 |2023-09-05 |CRAN (R 4.4.0) |
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|ggforce |0.4.2 |2024-02-19 |CRAN (R 4.4.0) |
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|ggforce |0.5.0 |2025-06-18 |CRAN (R 4.4.1) |
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|ggplot2 |3.5.2 |2025-04-09 |CRAN (R 4.4.1) |
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|ggridges |0.5.6 |2024-01-23 |CRAN (R 4.4.0) |
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|ggstats |0.9.0 |2025-03-10 |CRAN (R 4.4.1) |
|
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|gh |1.4.1 |2024-03-28 |CRAN (R 4.4.0) |
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|gitcreds |0.1.2 |2022-09-08 |CRAN (R 4.4.1) |
|
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|ggstats |0.10.0 |2025-07-02 |CRAN (R 4.4.1) |
|
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|glue |1.8.0 |2024-09-30 |CRAN (R 4.4.1) |
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|gridExtra |2.3 |2017-09-09 |CRAN (R 4.4.1) |
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|gt |1.0.0 |2025-04-05 |CRAN (R 4.4.1) |
|
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|gtable |0.3.6 |2024-10-25 |CRAN (R 4.4.1) |
|
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|gtsummary |2.2.0 |2025-04-14 |CRAN (R 4.4.1) |
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|haven |2.5.4 |2023-11-30 |CRAN (R 4.4.0) |
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|gtsummary |2.3.0 |2025-07-03 |CRAN (R 4.4.1) |
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|haven |2.5.5 |2025-05-30 |CRAN (R 4.4.1) |
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|here |1.0.1 |2020-12-13 |CRAN (R 4.4.1) |
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|Hmisc |5.2-3 |2025-03-16 |CRAN (R 4.4.1) |
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|hms |1.1.3 |2023-03-21 |CRAN (R 4.4.0) |
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@ -116,18 +110,16 @@
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|htmltools |0.5.8.1 |2024-04-04 |CRAN (R 4.4.1) |
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|htmlwidgets |1.6.4 |2023-12-06 |CRAN (R 4.4.0) |
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|httpuv |1.6.16 |2025-04-16 |CRAN (R 4.4.1) |
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|httr2 |1.1.2 |2025-03-26 |CRAN (R 4.4.1) |
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|IDEAFilter |0.2.0 |2024-04-15 |CRAN (R 4.4.0) |
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|insight |1.2.0 |2025-04-22 |CRAN (R 4.4.1) |
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|insight |1.3.1 |2025-06-30 |CRAN (R 4.4.1) |
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|iterators |1.0.14 |2022-02-05 |CRAN (R 4.4.1) |
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|jquerylib |0.1.4 |2021-04-26 |CRAN (R 4.4.0) |
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|jsonlite |2.0.0 |2025-03-27 |CRAN (R 4.4.1) |
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|jsonvalidate |1.5.0 |2025-02-07 |CRAN (R 4.4.1) |
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|KernSmooth |2.23-26 |2025-01-01 |CRAN (R 4.4.1) |
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|keyring |1.3.2 |2023-12-11 |CRAN (R 4.4.0) |
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|keyring |1.4.1 |2025-06-15 |CRAN (R 4.4.1) |
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|knitr |1.50 |2025-03-16 |CRAN (R 4.4.1) |
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|labeling |0.4.3 |2023-08-29 |CRAN (R 4.4.1) |
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|labelled |2.14.0 |2025-01-08 |CRAN (R 4.4.1) |
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|later |1.4.2 |2025-04-08 |CRAN (R 4.4.1) |
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|lattice |0.22-7 |2025-04-02 |CRAN (R 4.4.1) |
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|lifecycle |1.0.4 |2023-11-07 |CRAN (R 4.4.1) |
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|MASS |7.3-65 |2025-02-28 |CRAN (R 4.4.1) |
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|Matrix |1.7-3 |2025-03-11 |CRAN (R 4.4.1) |
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|memoise |2.0.1 |2021-11-26 |CRAN (R 4.4.0) |
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|mgcv |1.9-3 |2025-04-04 |CRAN (R 4.4.1) |
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|mime |0.13 |2025-03-17 |CRAN (R 4.4.1) |
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|miniUI |0.1.2 |2025-04-17 |CRAN (R 4.4.1) |
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|minqa |1.2.8 |2024-08-17 |CRAN (R 4.4.1) |
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|nlme |3.1-168 |2025-03-31 |CRAN (R 4.4.1) |
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|nloptr |2.2.1 |2025-03-17 |CRAN (R 4.4.1) |
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|nnet |7.3-20 |2025-01-01 |CRAN (R 4.4.1) |
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|officer |0.6.8 |2025-03-23 |CRAN (R 4.4.1) |
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|officer |0.6.10 |2025-05-30 |CRAN (R 4.4.1) |
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|opdisDownsampling |1.0.1 |2024-04-15 |CRAN (R 4.4.0) |
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|openssl |2.3.2 |2025-02-03 |CRAN (R 4.4.1) |
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|openxlsx2 |1.15 |2025-04-25 |CRAN (R 4.4.1) |
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|pak |0.8.0.2 |2025-04-08 |CRAN (R 4.4.1) |
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|parameters |0.24.2 |2025-03-04 |CRAN (R 4.4.1) |
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|patchwork |1.3.0 |2024-09-16 |CRAN (R 4.4.1) |
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|openssl |2.3.3 |2025-05-26 |CRAN (R 4.4.1) |
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|openxlsx2 |1.17 |2025-07-04 |CRAN (R 4.4.1) |
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|pak |0.9.0 |2025-05-27 |CRAN (R 4.4.1) |
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|parameters |0.27.0 |2025-07-09 |CRAN (R 4.4.1) |
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|patchwork |1.3.1 |2025-06-21 |CRAN (R 4.4.1) |
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|pbmcapply |1.5.1 |2022-04-28 |CRAN (R 4.4.1) |
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|performance |0.13.0 |2025-01-15 |CRAN (R 4.4.1) |
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|performance |0.15.0 |2025-07-10 |CRAN (R 4.4.1) |
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|phosphoricons |0.2.1 |2024-04-08 |CRAN (R 4.4.0) |
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|pillar |1.10.2 |2025-04-05 |CRAN (R 4.4.1) |
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|pkgbuild |1.4.7 |2025-03-24 |CRAN (R 4.4.1) |
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|pillar |1.11.0 |2025-07-04 |CRAN (R 4.4.1) |
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|pkgbuild |1.4.8 |2025-05-26 |CRAN (R 4.4.1) |
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|pkgconfig |2.0.3 |2019-09-22 |CRAN (R 4.4.1) |
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|pkgload |1.4.0 |2024-06-28 |CRAN (R 4.4.0) |
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|plyr |1.8.9 |2023-10-02 |CRAN (R 4.4.1) |
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@ -166,25 +157,21 @@
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|pracma |2.4.4 |2023-11-10 |CRAN (R 4.4.1) |
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|processx |3.8.6 |2025-02-21 |CRAN (R 4.4.1) |
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|profvis |0.4.0 |2024-09-20 |CRAN (R 4.4.1) |
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|promises |1.3.2 |2024-11-28 |CRAN (R 4.4.1) |
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|promises |1.3.3 |2025-05-29 |CRAN (R 4.4.1) |
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|proxy |0.4-27 |2022-06-09 |CRAN (R 4.4.1) |
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|ps |1.9.1 |2025-04-12 |CRAN (R 4.4.1) |
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|purrr |1.0.4 |2025-02-05 |CRAN (R 4.4.1) |
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|purrr |1.1.0 |2025-07-10 |CRAN (R 4.4.1) |
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|qqconf |1.3.2 |2023-04-14 |CRAN (R 4.4.0) |
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|qqplotr |0.0.6 |2023-01-25 |CRAN (R 4.4.0) |
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|quarto |1.4.4 |2024-07-20 |CRAN (R 4.4.0) |
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|R.cache |0.16.0 |2022-07-21 |CRAN (R 4.4.0) |
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|R.methodsS3 |1.8.2 |2022-06-13 |CRAN (R 4.4.1) |
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|R.oo |1.27.0 |2024-11-01 |CRAN (R 4.4.1) |
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|R.utils |2.13.0 |2025-02-24 |CRAN (R 4.4.1) |
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|R6 |2.6.1 |2025-02-15 |CRAN (R 4.4.1) |
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|ragg |1.4.0 |2025-04-10 |CRAN (R 4.4.1) |
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|rankinPlot |1.1.0 |2023-01-30 |CRAN (R 4.4.0) |
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|rappdirs |0.3.3 |2021-01-31 |CRAN (R 4.4.1) |
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|rbibutils |2.3 |2024-10-04 |CRAN (R 4.4.1) |
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|RColorBrewer |1.1-3 |2022-04-03 |CRAN (R 4.4.1) |
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|Rcpp |1.0.14 |2025-01-12 |CRAN (R 4.4.1) |
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|RcppArmadillo |14.4.2-1 |2025-04-25 |CRAN (R 4.4.1) |
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|Rcpp |1.1.0 |2025-07-02 |CRAN (R 4.4.1) |
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|RcppArmadillo |14.6.0-1 |2025-07-02 |CRAN (R 4.4.1) |
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|Rdpack |2.6.4 |2025-04-09 |CRAN (R 4.4.1) |
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|reactable |0.4.4 |2023-03-12 |CRAN (R 4.4.0) |
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|readODS |2.3.2 |2025-01-13 |CRAN (R 4.4.1) |
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@ -192,7 +179,7 @@
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|readxl |1.4.5 |2025-03-07 |CRAN (R 4.4.1) |
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|REDCapCAST |25.3.2 |2025-03-10 |CRAN (R 4.4.1) |
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|REDCapR |1.4.0 |2025-01-11 |CRAN (R 4.4.1) |
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|reformulas |0.4.0 |2024-11-03 |CRAN (R 4.4.1) |
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|reformulas |0.4.1 |2025-04-30 |CRAN (R 4.4.1) |
|
||||
|remotes |2.5.0 |2024-03-17 |CRAN (R 4.4.1) |
|
||||
|rempsyc |0.1.9 |2025-02-01 |CRAN (R 4.4.1) |
|
||||
|renv |1.1.4 |2025-03-20 |CRAN (R 4.4.1) |
|
||||
|
|
@ -203,29 +190,26 @@
|
|||
|robustbase |0.99-4-1 |2024-09-27 |CRAN (R 4.4.1) |
|
||||
|roxygen2 |7.3.2 |2024-06-28 |CRAN (R 4.4.0) |
|
||||
|rpart |4.1.24 |2025-01-07 |CRAN (R 4.4.1) |
|
||||
|rprojroot |2.0.4 |2023-11-05 |CRAN (R 4.4.1) |
|
||||
|rsconnect |1.3.4 |2025-01-22 |CRAN (R 4.4.1) |
|
||||
|rprojroot |2.1.0 |2025-07-12 |CRAN (R 4.4.1) |
|
||||
|rsconnect |1.5.0 |2025-06-26 |CRAN (R 4.4.1) |
|
||||
|rstudioapi |0.17.1 |2024-10-22 |CRAN (R 4.4.1) |
|
||||
|sass |0.4.10 |2025-04-11 |CRAN (R 4.4.1) |
|
||||
|scales |1.4.0 |2025-04-24 |CRAN (R 4.4.1) |
|
||||
|see |0.11.0 |2025-03-11 |CRAN (R 4.4.1) |
|
||||
|sessioninfo |1.2.3 |2025-02-05 |CRAN (R 4.4.1) |
|
||||
|shiny |1.10.0 |2024-12-14 |CRAN (R 4.4.1) |
|
||||
|shiny2docker |0.0.2 |2025-02-09 |CRAN (R 4.4.1) |
|
||||
|shiny |1.11.1 |2025-07-03 |CRAN (R 4.4.1) |
|
||||
|shiny2docker |0.0.3 |2025-06-28 |CRAN (R 4.4.1) |
|
||||
|shinybusy |0.3.3 |2024-03-09 |CRAN (R 4.4.0) |
|
||||
|shinyjs |2.1.0 |2021-12-23 |CRAN (R 4.4.0) |
|
||||
|shinyTime |1.0.3 |2022-08-19 |CRAN (R 4.4.0) |
|
||||
|shinyWidgets |0.9.0 |2025-02-21 |CRAN (R 4.4.1) |
|
||||
|sourcetools |0.1.7-1 |2023-02-01 |CRAN (R 4.4.1) |
|
||||
|stringi |1.8.7 |2025-03-27 |CRAN (R 4.4.1) |
|
||||
|stringr |1.5.1 |2023-11-14 |CRAN (R 4.4.0) |
|
||||
|styler |1.10.3 |2024-04-07 |CRAN (R 4.4.0) |
|
||||
|sys |3.4.3 |2024-10-04 |CRAN (R 4.4.1) |
|
||||
|systemfonts |1.2.2 |2025-04-04 |CRAN (R 4.4.1) |
|
||||
|systemfonts |1.2.3 |2025-04-30 |CRAN (R 4.4.1) |
|
||||
|testthat |3.2.3 |2025-01-13 |CRAN (R 4.4.1) |
|
||||
|textshaping |1.0.0 |2025-01-20 |CRAN (R 4.4.1) |
|
||||
|thematic |0.1.6 |2024-07-29 |CRAN (R 4.4.0) |
|
||||
|tibble |3.2.1 |2023-03-20 |CRAN (R 4.4.0) |
|
||||
|textshaping |1.0.1 |2025-05-01 |CRAN (R 4.4.1) |
|
||||
|thematic |0.1.7 |2025-06-19 |CRAN (R 4.4.1) |
|
||||
|tibble |3.3.0 |2025-06-08 |CRAN (R 4.4.1) |
|
||||
|tidyr |1.3.1 |2024-01-24 |CRAN (R 4.4.1) |
|
||||
|tidyselect |1.2.1 |2024-03-11 |CRAN (R 4.4.0) |
|
||||
|timechange |0.3.0 |2024-01-18 |CRAN (R 4.4.1) |
|
||||
|
|
@ -236,7 +220,7 @@
|
|||
|urlchecker |1.0.1 |2021-11-30 |CRAN (R 4.4.1) |
|
||||
|usethis |3.1.0 |2024-11-26 |CRAN (R 4.4.1) |
|
||||
|uuid |1.2-1 |2024-07-29 |CRAN (R 4.4.1) |
|
||||
|V8 |6.0.3 |2025-03-26 |CRAN (R 4.4.1) |
|
||||
|V8 |6.0.4 |2025-06-04 |CRAN (R 4.4.1) |
|
||||
|vctrs |0.6.5 |2023-12-01 |CRAN (R 4.4.0) |
|
||||
|vroom |1.6.5 |2023-12-05 |CRAN (R 4.4.0) |
|
||||
|withr |3.0.2 |2024-10-28 |CRAN (R 4.4.1) |
|
||||
|
|
@ -246,4 +230,4 @@
|
|||
|xtable |1.8-4 |2019-04-21 |CRAN (R 4.4.1) |
|
||||
|yaml |2.3.10 |2024-07-26 |CRAN (R 4.4.1) |
|
||||
|yesno |0.1.3 |2024-07-26 |CRAN (R 4.4.1) |
|
||||
|zip |2.3.2 |2025-02-01 |CRAN (R 4.4.1) |
|
||||
|zip |2.3.3 |2025-05-13 |CRAN (R 4.4.1) |
|
||||
|
|
|
|||
|
|
@ -1,5 +1,5 @@
|
|||
FROM rocker/geospatial:4.4.1
|
||||
RUN apt-get update -y && apt-get install -y cmake make libcurl4-openssl-dev libicu-dev libssl-dev pandoc zlib1g-dev libsecret-1-dev libxml2-dev libx11-dev libcairo2-dev libfontconfig1-dev libfreetype6-dev libfribidi-dev libharfbuzz-dev libjpeg-dev libpng-dev libtiff-dev libfftw3-dev libsodium-dev && rm -rf /var/lib/apt/lists/*
|
||||
RUN apt-get update -y && apt-get install -y cmake make libcurl4-openssl-dev libicu-dev libssl-dev pandoc zlib1g-dev libsecret-1-dev libxml2-dev libx11-dev libcairo2-dev libfontconfig1-dev libfreetype6-dev libfribidi-dev libharfbuzz-dev libjpeg-dev libpng-dev libtiff-dev libfftw3-dev && rm -rf /var/lib/apt/lists/*
|
||||
RUN mkdir -p /usr/local/lib/R/etc/ /usr/lib/R/etc/
|
||||
RUN echo "options(renv.config.pak.enabled = FALSE, repos = c(CRAN = 'https://cran.rstudio.com/'), download.file.method = 'libcurl', Ncpus = 4)" | tee /usr/local/lib/R/etc/Rprofile.site | tee /usr/lib/R/etc/Rprofile.site
|
||||
RUN R -e 'install.packages("remotes")'
|
||||
|
|
|
|||
1229
app_docker/app.R
1229
app_docker/app.R
File diff suppressed because it is too large
Load diff
File diff suppressed because one or more lines are too long
|
|
@ -1,31 +1,19 @@
|
|||
# Welcome <img style="float: right;" src="FreesearchR-logo.png">
|
||||
# Welcome <img src="FreesearchR-logo.png" style="float: right;"/>
|
||||
|
||||
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.
|
||||
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.
|
||||
|
||||
Here is a brief summary of the functions:
|
||||
With this tool you can:
|
||||
|
||||
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.
|
||||
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
|
||||
6. **Download** results as a report, get the modified data set and save the code for learning and to reproduce the results later
|
||||
|
||||
- Plot regression analysis coefficients
|
||||
|
||||
- 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).
|
||||
|
|
|
|||
29
app_docker/www/scripts.js
Normal file
29
app_docker/www/scripts.js
Normal file
|
|
@ -0,0 +1,29 @@
|
|||
// Automatically close drop-downs on navigation
|
||||
// Thanks to claude.ai
|
||||
$(document).on('shown.bs.tab', '#main_panel', function(e) {
|
||||
// Close dropdown in this specific navset only
|
||||
$('#main_panel .dropdown-menu').removeClass('show');
|
||||
$('#main_panel .dropdown-toggle').removeClass('show').attr('aria-expanded', 'false');
|
||||
});
|
||||
|
||||
$(document).on('shiny:sessioninitialized', function() {
|
||||
// Function to collapse navbar on mobile
|
||||
function collapseNavbar() {
|
||||
var navbar = $('.navbar-collapse');
|
||||
if (navbar.hasClass('show')) {
|
||||
navbar.removeClass('show');
|
||||
$('.navbar-toggler').addClass('collapsed');
|
||||
$('.navbar-toggler').attr('aria-expanded', 'false');
|
||||
}
|
||||
}
|
||||
|
||||
// Add click event to navigation tabs
|
||||
$(document).on('click', '.nav-link[data-bs-toggle=\"tab\"]', function() {
|
||||
setTimeout(collapseNavbar, 10);
|
||||
});
|
||||
|
||||
// Also handle direct clicks on nav items
|
||||
$(document).on('click', '.navbar-nav .nav-link', function() {
|
||||
setTimeout(collapseNavbar, 10);
|
||||
});
|
||||
});
|
||||
|
|
@ -4026,7 +4026,7 @@ simple_snake <- function(data){
|
|||
#### Current file: /Users/au301842/FreesearchR/R//hosted_version.R
|
||||
########
|
||||
|
||||
hosted_version <- function()'v25.7.2-250704'
|
||||
hosted_version <- function()'v25.7.2-250722'
|
||||
|
||||
|
||||
########
|
||||
|
|
@ -8681,7 +8681,7 @@ ui_elements <- function(selection) {
|
|||
icon = bsicons::bs_icon("bounding-box"),
|
||||
bslib::layout_sidebar(
|
||||
sidebar = bslib::sidebar(
|
||||
shiny::uiOutput(outputId = "data_info_nochar", inline = TRUE),
|
||||
# shiny::uiOutput(outputId = "data_info_nochar", inline = TRUE),
|
||||
bslib::accordion(
|
||||
open = "acc_chars",
|
||||
multiple = FALSE,
|
||||
|
|
@ -10771,18 +10771,16 @@ server <- function(input, output, session) {
|
|||
shiny::updateActionButton(inputId = "modal_visual_overview", disabled = TRUE)
|
||||
shiny::updateActionButton(inputId = "act_eval", disabled = TRUE)
|
||||
|
||||
bslib::nav_hide(id = "main_panel",
|
||||
target = "nav_visuals")
|
||||
# bslib::nav_hide(id = "main_panel",
|
||||
# target = "nav_visuals")
|
||||
} else {
|
||||
shiny::updateActionButton(inputId = "act_start", disabled = FALSE)
|
||||
shiny::updateActionButton(inputId = "modal_browse", disabled = FALSE)
|
||||
shiny::updateActionButton(inputId = "modal_visual_overview", disabled = FALSE)
|
||||
shiny::updateActionButton(inputId = "act_eval", disabled = FALSE)
|
||||
|
||||
bslib::nav_show(id = "main_panel",
|
||||
target = "nav_visuals")
|
||||
|
||||
|
||||
# bslib::nav_show(id = "main_panel",
|
||||
# target = "nav_visuals")
|
||||
}
|
||||
})
|
||||
|
||||
|
|
|
|||
|
|
@ -1,31 +1,19 @@
|
|||
# Welcome <img style="float: right;" src="FreesearchR-logo.png">
|
||||
# Welcome <img src="FreesearchR-logo.png" style="float: right;"/>
|
||||
|
||||
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.
|
||||
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.
|
||||
|
||||
Here is a brief summary of the functions:
|
||||
With this tool you can:
|
||||
|
||||
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.
|
||||
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
|
||||
6. **Download** results as a report, get the modified data set and save the code for learning and to reproduce the results later
|
||||
|
||||
- Plot regression analysis coefficients
|
||||
|
||||
- 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).
|
||||
|
|
|
|||
508
renv.lock
508
renv.lock
File diff suppressed because one or more lines are too long
|
|
@ -14,15 +14,11 @@ library(FreesearchR)
|
|||
|
||||
# Getting started with ***FreesearchR***
|
||||
|
||||
Below is a simple walk-trough and basic instructions for the functions on the FreesearchR app.
|
||||
Below is a simple walk-trough and basic descriptions on the different features of the ***FreesearchR*** app.
|
||||
|
||||
## Launching
|
||||
|
||||
The easiest way to get started is to launch [the hosted version of the app on shinyapps.io (click this link)](https://agdamsbo.shinyapps.io/freesearcheR/).
|
||||
|
||||
Additionally you have the option to run the app locally with access to any data in your current working environment.
|
||||
|
||||
To do this, open *R* (or RStudio or similar), and run the following code to install the latest version of ***FreesearchR*** and launch the app:
|
||||
The easiest way to get started is to launch [the onlie version of the app (click this link)](https://app.freesearchr.org/). Please be aware not to upload sensitive data in this version as data security can not be guaranteed in this online environment. The app can easily be run from *R* on your own computer by running the code below ([read more on running locally here](https://agdamsbo.github.io/FreesearchR/#run-locally-on-your-own-machine)):
|
||||
|
||||
```{r}
|
||||
require("pak")
|
||||
|
|
@ -31,19 +27,17 @@ library(FreesearchR)
|
|||
FreesearchR::launch_FreesearchR()
|
||||
```
|
||||
|
||||
As a small note, a standalone Windows app version is on the drawing board as well, but no time frame is available.
|
||||
As a small note, a standalone Windows app version is on the drawing board as well, but no time frame is currently available.
|
||||
|
||||
## Importing data
|
||||
## Get started
|
||||
|
||||
Once in the app and in the "**Import**", you have three options available for importing data: file upload, REDCap server export and local or sample data.
|
||||
Once in the app, get started by loading your data. You have three options available for importing data: file upload, REDCap server export and local or sample data.
|
||||
|
||||
After choosing a data source, you can set a threshold to filter data be completenes and further manually specify variables to include for analyses.
|
||||
After choosing a data source nad importing data, you can preview the basic data structure and missing observations, set a threshold to filter data by completeness and further manually specify variables to include for analyses.
|
||||
|
||||
### File upload
|
||||
|
||||
Currently several data file formats are supported for easy import (csv, txt, xls(x), ods, rds, dta). If importing workbooks (xls(x) or ods), you are prompted to specify sheet(s) to import. If choosing multiple sheets, these are automatically merged by common variable(s), so please make sure that key variables are correctly named identically.
|
||||
|
||||
A notification is posted with error or success. After succesfull import data can be previewed directly by clicking "click to see data" in the notification.
|
||||
Several data file formats are supported for easy import (csv, txt, xls(x), ods, rds, dta). If importing workbooks (xls(x) or ods), you are prompted to specify sheet(s) to import. If choosing multiple sheets, these are automatically merged by common variable(s), so please make sure that key/ID variables are correctly named identically.
|
||||
|
||||
### REDCap server export
|
||||
|
||||
|
|
@ -59,11 +53,11 @@ This will unfold options to preview your data dictionary (the main database meta
|
|||
|
||||
### Local or sample data
|
||||
|
||||
When opening the online hosted app, this is mainly for testing purposes. When running the app locally from *R* on your own computer, you will find all data.frames in the current environment here. This extends the possible uses of this app to allow for quick and easy data insights and code generation for basic plotting to fine tune.
|
||||
When opening the online hosted app, you can load some sample data to try out the app. When running the app locally from *R* on your own computer, you will find all data frames loaded in your environment here. This extends the possible uses of this app to allow for quick and easy data insights and code generation.
|
||||
|
||||
## Data
|
||||
## Prepare
|
||||
|
||||
This is the panel to get a good overview of your data, check data is classed and formatted correctly, perform simple modifications and filter data.
|
||||
This is the panel to prepare data for evaluation and analyses and get a good overview of your data, check data is classed and formatted correctly, perform simple modifications and filter data.
|
||||
|
||||
### Summary
|
||||
|
||||
|
|
@ -147,11 +141,13 @@ c("continuous", "dichotomous", "categorical") |>
|
|||
|
||||
Generate simple regression models and get the results in a nice table. This will also be included in the exported report.
|
||||
|
||||
This will generate a combined table with both univariate regression model results for each included variable and a multivariate model with all variables included for explorative analyses.
|
||||
|
||||
### Plots
|
||||
|
||||
Plot the coefficients from the regression models in a forest plot. Choose which model(s) to include.
|
||||
|
||||
### Checks
|
||||
### Model checks
|
||||
|
||||
Check model assumptions visually. Supported checks can be chosen.
|
||||
|
||||
|
|
|
|||
|
|
@ -23,4 +23,4 @@ library(FreesearchR)
|
|||
|
||||
### Further reading
|
||||
|
||||
The authors behind the [{finalfit}-package]() have shared a very comprehensive article on what to do and think about missing observations in your data. Please [have a look here]().
|
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The authors behind the [{finalfit}-package](https://finalfit.org/index.html) have shared a very comprehensive article on what to do and think about missing observations in your data. Please [have a look here](https://finalfit.org/articles/missing.html).
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