andreas/FreesearchR
1
0
Fork 0
mirror of https://github.com/agdamsbo/FreesearchR.git synced 2025-09-12 01:49:39 +02:00
Code Issues Projects Releases Packages Wiki Activity Actions 1

new version
Some checks failed
pkgdown.yaml / pkgdown (push) Has been cancelled
Details

Browse source
This commit is contained in:
Andreas Gammelgaard Damsbo 2025-08-08 14:08:44 +02:00
parent 7fceb96a83
commit 67cfc31304
No known key found for this signature in database
7 changed files with 95 additions and 74 deletions
Show stats Download patch file Download diff file Expand all files Collapse all files

2
CITATION.cff
View file

@ -9,7 +9,7 @@ type: software
license: AGPL-3.0-or-later license: AGPL-3.0-or-later
title: 'FreesearchR: A free and open-source browser based data analysis tool for researchers title: 'FreesearchR: A free and open-source browser based data analysis tool for researchers
with publication ready output' with publication ready output'
version: 25.7.3 version: 25.8.1
doi: 10.5281/zenodo.14527429 doi: 10.5281/zenodo.14527429
identifiers: identifiers:
- type: url - type: url

2
R/app_version.R
View file

@ -1 +1 @@
app_version <- function()'25.7.3' app_version <- function()'25.8.1'

2
R/hosted_version.R
View file

@ -1 +1 @@
hosted_version <- function()'v25.7.3-250808' hosted_version <- function()'v25.8.1-250808'

BIN
R/sysdata.rda
View file

Binary file not shown.

31
SESSION.md
View file

@ -11,11 +11,11 @@
|collate |en_US.UTF-8 | |collate |en_US.UTF-8 |
|ctype |en_US.UTF-8 | |ctype |en_US.UTF-8 |
|tz |Europe/Copenhagen | |tz |Europe/Copenhagen |
|date |2025-07-22 | |date |2025-08-08 |
|rstudio |2025.05.0+496 Mariposa Orchid (desktop) | |rstudio |2025.05.0+496 Mariposa Orchid (desktop) |
|pandoc |3.6.4 @ /opt/homebrew/bin/ (via rmarkdown) | |pandoc |3.6.4 @ /opt/homebrew/bin/ (via rmarkdown) |
|quarto |1.7.30 @ /usr/local/bin/quarto | |quarto |1.7.30 @ /usr/local/bin/quarto |
|FreesearchR |25.7.3.250722 | |FreesearchR |25.8.1.250808 |
-------------------------------------------------------------------------------- --------------------------------------------------------------------------------
@ -26,8 +26,6 @@
|apexcharter |0.4.4 |2024-09-06 |CRAN (R 4.4.1) | |apexcharter |0.4.4 |2024-09-06 |CRAN (R 4.4.1) |
|askpass |1.2.1 |2024-10-04 |CRAN (R 4.4.1) | |askpass |1.2.1 |2024-10-04 |CRAN (R 4.4.1) |
|assertthat |0.2.1 |2019-03-21 |CRAN (R 4.4.1) | |assertthat |0.2.1 |2019-03-21 |CRAN (R 4.4.1) |
|attachment |0.4.5 |2025-03-14 |CRAN (R 4.4.1) |
|attempt |0.3.1 |2020-05-03 |CRAN (R 4.4.1) |
|backports |1.5.0 |2024-05-23 |CRAN (R 4.4.1) | |backports |1.5.0 |2024-05-23 |CRAN (R 4.4.1) |
|base64enc |0.1-3 |2015-07-28 |CRAN (R 4.4.1) | |base64enc |0.1-3 |2015-07-28 |CRAN (R 4.4.1) |
|bayestestR |0.16.1 |2025-07-01 |CRAN (R 4.4.1) | |bayestestR |0.16.1 |2025-07-01 |CRAN (R 4.4.1) |
@ -45,7 +43,6 @@
|cardx |0.2.5 |2025-07-03 |CRAN (R 4.4.1) | |cardx |0.2.5 |2025-07-03 |CRAN (R 4.4.1) |
|caTools |1.18.3 |2024-09-04 |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) | |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) | |checkmate |2.3.2 |2024-07-29 |CRAN (R 4.4.0) |
|class |7.3-23 |2025-01-01 |CRAN (R 4.4.1) | |class |7.3-23 |2025-01-01 |CRAN (R 4.4.1) |
|classInt |0.4-11 |2025-01-08 |CRAN (R 4.4.1) | |classInt |0.4-11 |2025-01-08 |CRAN (R 4.4.1) |
@ -55,8 +52,6 @@
|colorspace |2.1-1 |2024-07-26 |CRAN (R 4.4.1) | |colorspace |2.1-1 |2024-07-26 |CRAN (R 4.4.1) |
|commonmark |2.0.0 |2025-07-07 |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) | |crayon |1.5.3 |2024-06-20 |CRAN (R 4.4.1) |
|credentials |2.0.2 |2024-10-04 |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) | |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) | |datamods |1.5.3 |2024-10-02 |CRAN (R 4.4.1) |
|datawizard |1.2.0 |2025-07-17 |CRAN (R 4.4.1) | |datawizard |1.2.0 |2025-07-17 |CRAN (R 4.4.1) |
@ -65,7 +60,6 @@
|devtools |2.4.5 |2022-10-11 |CRAN (R 4.4.0) | |devtools |2.4.5 |2022-10-11 |CRAN (R 4.4.0) |
|DHARMa |0.4.7 |2024-10-18 |CRAN (R 4.4.1) | |DHARMa |0.4.7 |2024-10-18 |CRAN (R 4.4.1) |
|digest |0.6.37 |2024-08-19 |CRAN (R 4.4.1) | |digest |0.6.37 |2024-08-19 |CRAN (R 4.4.1) |
|dockerfiler |0.2.5 |2025-05-07 |CRAN (R 4.4.1) |
|doParallel |1.0.17 |2022-02-07 |CRAN (R 4.4.0) | |doParallel |1.0.17 |2022-02-07 |CRAN (R 4.4.0) |
|dplyr |1.1.4 |2023-11-17 |CRAN (R 4.4.0) | |dplyr |1.1.4 |2023-11-17 |CRAN (R 4.4.0) |
|DT |0.33 |2024-04-04 |CRAN (R 4.4.0) | |DT |0.33 |2024-04-04 |CRAN (R 4.4.0) |
@ -88,19 +82,16 @@
|foreach |1.5.2 |2022-02-02 |CRAN (R 4.4.0) | |foreach |1.5.2 |2022-02-02 |CRAN (R 4.4.0) |
|foreign |0.8-90 |2025-03-31 |CRAN (R 4.4.1) | |foreign |0.8-90 |2025-03-31 |CRAN (R 4.4.1) |
|Formula |1.2-5 |2023-02-24 |CRAN (R 4.4.1) | |Formula |1.2-5 |2023-02-24 |CRAN (R 4.4.1) |
|FreesearchR |25.7.3 |NA |NA | |FreesearchR |25.8.1 |NA |NA |
|fs |1.6.6 |2025-04-12 |CRAN (R 4.4.1) | |fs |1.6.6 |2025-04-12 |CRAN (R 4.4.1) |
|gdtools |0.4.2 |2025-03-27 |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) | |generics |0.1.4 |2025-05-09 |CRAN (R 4.4.1) |
|gert |2.1.5 |2025-03-25 |CRAN (R 4.4.1) |
|ggalluvial |0.12.5 |2023-02-22 |CRAN (R 4.4.0) | |ggalluvial |0.12.5 |2023-02-22 |CRAN (R 4.4.0) |
|ggcorrplot |0.1.4.1 |2023-09-05 |CRAN (R 4.4.0) | |ggcorrplot |0.1.4.1 |2023-09-05 |CRAN (R 4.4.0) |
|ggforce |0.5.0 |2025-06-18 |CRAN (R 4.4.1) | |ggforce |0.5.0 |2025-06-18 |CRAN (R 4.4.1) |
|ggplot2 |3.5.2 |2025-04-09 |CRAN (R 4.4.1) | |ggplot2 |3.5.2 |2025-04-09 |CRAN (R 4.4.1) |
|ggridges |0.5.6 |2024-01-23 |CRAN (R 4.4.0) | |ggridges |0.5.6 |2024-01-23 |CRAN (R 4.4.0) |
|ggstats |0.10.0 |2025-07-02 |CRAN (R 4.4.1) | |ggstats |0.10.0 |2025-07-02 |CRAN (R 4.4.1) |
|gh |1.5.0 |2025-05-26 |CRAN (R 4.4.1) |
|gitcreds |0.1.2 |2022-09-08 |CRAN (R 4.4.1) |
|glue |1.8.0 |2024-09-30 |CRAN (R 4.4.1) | |glue |1.8.0 |2024-09-30 |CRAN (R 4.4.1) |
|gridExtra |2.3 |2017-09-09 |CRAN (R 4.4.1) | |gridExtra |2.3 |2017-09-09 |CRAN (R 4.4.1) |
|gt |1.0.0 |2025-04-05 |CRAN (R 4.4.1) | |gt |1.0.0 |2025-04-05 |CRAN (R 4.4.1) |
@ -114,13 +105,11 @@
|htmltools |0.5.8.1 |2024-04-04 |CRAN (R 4.4.1) | |htmltools |0.5.8.1 |2024-04-04 |CRAN (R 4.4.1) |
|htmlwidgets |1.6.4 |2023-12-06 |CRAN (R 4.4.0) | |htmlwidgets |1.6.4 |2023-12-06 |CRAN (R 4.4.0) |
|httpuv |1.6.16 |2025-04-16 |CRAN (R 4.4.1) | |httpuv |1.6.16 |2025-04-16 |CRAN (R 4.4.1) |
|httr2 |1.2.1 |2025-07-22 |CRAN (R 4.4.1) |
|IDEAFilter |0.2.0 |2024-04-15 |CRAN (R 4.4.0) | |IDEAFilter |0.2.0 |2024-04-15 |CRAN (R 4.4.0) |
|insight |1.3.1 |2025-06-30 |CRAN (R 4.4.1) | |insight |1.3.1 |2025-06-30 |CRAN (R 4.4.1) |
|iterators |1.0.14 |2022-02-05 |CRAN (R 4.4.1) | |iterators |1.0.14 |2022-02-05 |CRAN (R 4.4.1) |
|jquerylib |0.1.4 |2021-04-26 |CRAN (R 4.4.0) | |jquerylib |0.1.4 |2021-04-26 |CRAN (R 4.4.0) |
|jsonlite |2.0.0 |2025-03-27 |CRAN (R 4.4.1) | |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) | |KernSmooth |2.23-26 |2025-01-01 |CRAN (R 4.4.1) |
|keyring |1.4.1 |2025-06-15 |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) | |knitr |1.50 |2025-03-16 |CRAN (R 4.4.1) |
@ -128,11 +117,9 @@
|later |1.4.2 |2025-04-08 |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) | |lattice |0.22-7 |2025-04-02 |CRAN (R 4.4.1) |
|lifecycle |1.0.4 |2023-11-07 |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) | |lme4 |1.1-37 |2025-03-26 |CRAN (R 4.4.1) |
|lubridate |1.9.4 |2024-12-08 |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) | |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) | |MASS |7.3-65 |2025-02-28 |CRAN (R 4.4.1) |
|Matrix |1.7-3 |2025-03-11 |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) | |memoise |2.0.1 |2021-11-26 |CRAN (R 4.4.0) |
@ -147,7 +134,6 @@
|opdisDownsampling |1.0.1 |2024-04-15 |CRAN (R 4.4.0) | |opdisDownsampling |1.0.1 |2024-04-15 |CRAN (R 4.4.0) |
|openssl |2.3.3 |2025-05-26 |CRAN (R 4.4.1) | |openssl |2.3.3 |2025-05-26 |CRAN (R 4.4.1) |
|openxlsx2 |1.17 |2025-07-04 |CRAN (R 4.4.1) | |openxlsx2 |1.17 |2025-07-04 |CRAN (R 4.4.1) |
|pak |0.9.0 |2025-05-27 |CRAN (R 4.4.1) |
|parameters |0.27.0 |2025-07-09 |CRAN (R 4.4.1) | |parameters |0.27.0 |2025-07-09 |CRAN (R 4.4.1) |
|patchwork |1.3.1 |2025-06-21 |CRAN (R 4.4.1) | |patchwork |1.3.1 |2025-06-21 |CRAN (R 4.4.1) |
|pbmcapply |1.5.1 |2022-04-28 |CRAN (R 4.4.1) | |pbmcapply |1.5.1 |2022-04-28 |CRAN (R 4.4.1) |
@ -159,6 +145,7 @@
|pkgload |1.4.0 |2024-06-28 |CRAN (R 4.4.0) | |pkgload |1.4.0 |2024-06-28 |CRAN (R 4.4.0) |
|plyr |1.8.9 |2023-10-02 |CRAN (R 4.4.1) | |plyr |1.8.9 |2023-10-02 |CRAN (R 4.4.1) |
|polyclip |1.10-7 |2024-07-23 |CRAN (R 4.4.1) | |polyclip |1.10-7 |2024-07-23 |CRAN (R 4.4.1) |
|polylabelr |0.3.0 |2024-11-19 |CRAN (R 4.4.1) |
|pracma |2.4.4 |2023-11-10 |CRAN (R 4.4.1) | |pracma |2.4.4 |2023-11-10 |CRAN (R 4.4.1) |
|processx |3.8.6 |2025-02-21 |CRAN (R 4.4.1) | |processx |3.8.6 |2025-02-21 |CRAN (R 4.4.1) |
|profvis |0.4.0 |2024-09-20 |CRAN (R 4.4.1) | |profvis |0.4.0 |2024-09-20 |CRAN (R 4.4.1) |
@ -169,10 +156,13 @@
|qqconf |1.3.2 |2023-04-14 |CRAN (R 4.4.0) | |qqconf |1.3.2 |2023-04-14 |CRAN (R 4.4.0) |
|qqplotr |0.0.6 |2023-01-25 |CRAN (R 4.4.0) | |qqplotr |0.0.6 |2023-01-25 |CRAN (R 4.4.0) |
|quarto |1.4.4 |2024-07-20 |CRAN (R 4.4.0) | |quarto |1.4.4 |2024-07-20 |CRAN (R 4.4.0) |
|R.cache |0.17.0 |2025-05-02 |CRAN (R 4.4.1) |
|R.methodsS3 |1.8.2 |2022-06-13 |CRAN (R 4.4.1) |
|R.oo |1.27.1 |2025-05-02 |CRAN (R 4.4.1) |
|R.utils |2.13.0 |2025-02-24 |CRAN (R 4.4.1) |
|R6 |2.6.1 |2025-02-15 |CRAN (R 4.4.1) | |R6 |2.6.1 |2025-02-15 |CRAN (R 4.4.1) |
|ragg |1.4.0 |2025-04-10 |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) | |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) | |rbibutils |2.3 |2024-10-04 |CRAN (R 4.4.1) |
|RColorBrewer |1.1-3 |2022-04-03 |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) | |Rcpp |1.1.0 |2025-07-02 |CRAN (R 4.4.1) |
@ -203,14 +193,13 @@
|see |0.11.0 |2025-03-11 |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) | |sessioninfo |1.2.3 |2025-02-05 |CRAN (R 4.4.1) |
|shiny |1.11.1 |2025-07-03 |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) | |shinybusy |0.3.3 |2024-03-09 |CRAN (R 4.4.0) |
|shinyjs |2.1.0 |2021-12-23 |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) | |shinyTime |1.0.3 |2022-08-19 |CRAN (R 4.4.0) |
|shinyWidgets |0.9.0 |2025-02-21 |CRAN (R 4.4.1) | |shinyWidgets |0.9.0 |2025-02-21 |CRAN (R 4.4.1) |
|stringi |1.8.7 |2025-03-27 |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) | |stringr |1.5.1 |2023-11-14 |CRAN (R 4.4.0) |
|sys |3.4.3 |2024-10-04 |CRAN (R 4.4.1) | |styler |1.10.3 |2024-04-07 |CRAN (R 4.4.0) |
|systemfonts |1.2.3 |2025-04-30 |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) | |testthat |3.2.3 |2025-01-13 |CRAN (R 4.4.1) |
|textshaping |1.0.1 |2025-05-01 |CRAN (R 4.4.1) | |textshaping |1.0.1 |2025-05-01 |CRAN (R 4.4.1) |
@ -226,7 +215,6 @@
|urlchecker |1.0.1 |2021-11-30 |CRAN (R 4.4.1) | |urlchecker |1.0.1 |2021-11-30 |CRAN (R 4.4.1) |
|usethis |3.1.0 |2024-11-26 |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) | |uuid |1.2-1 |2024-07-29 |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) | |vctrs |0.6.5 |2023-12-01 |CRAN (R 4.4.0) |
|vroom |1.6.5 |2023-12-05 |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) | |withr |3.0.2 |2024-10-28 |CRAN (R 4.4.1) |
@ -235,5 +223,4 @@
|xml2 |1.3.8 |2025-03-14 |CRAN (R 4.4.1) | |xml2 |1.3.8 |2025-03-14 |CRAN (R 4.4.1) |
|xtable |1.8-4 |2019-04-21 |CRAN (R 4.4.1) | |xtable |1.8-4 |2019-04-21 |CRAN (R 4.4.1) |
|yaml |2.3.10 |2024-07-26 |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 |2.3.3 |2025-05-13 |CRAN (R 4.4.1) | |zip |2.3.3 |2025-05-13 |CRAN (R 4.4.1) |

54
app_docker/app.R
View file

@ -49,7 +49,7 @@ library(rlang)
#### Current file: /Users/au301842/FreesearchR/R//app_version.R #### Current file: /Users/au301842/FreesearchR/R//app_version.R
######## ########
app_version <- function()'25.7.2' app_version <- function()'25.8.1'
######## ########
@ -2338,7 +2338,10 @@ line_break <- function(data, lineLength = 20, force = FALSE) {
#' @param data list of ggplot2 objects #' @param data list of ggplot2 objects
#' @param tag_levels passed to patchwork::plot_annotation if given. Default is NULL #' @param tag_levels passed to patchwork::plot_annotation if given. Default is NULL
#' @param title panel title #' @param title panel title
#' @param ... ignored for argument overflow #' @param guides passed to patchwork::wrap_plots()
#' @param axes passed to patchwork::wrap_plots()
#' @param axis_titles passed to patchwork::wrap_plots()
#' @param ... passed to patchwork::wrap_plots()
#' #'
#' @returns list of ggplot2 objects #' @returns list of ggplot2 objects
#' @export #' @export
@ -2347,6 +2350,9 @@ wrap_plot_list <- function(data,
tag_levels = NULL, tag_levels = NULL,
title = NULL, title = NULL,
axis.font.family = NULL, axis.font.family = NULL,
guides = "collect",
axes = "collect",
axis_titles = "collect",
...) { ...) {
if (ggplot2::is_ggplot(data[[1]])) { if (ggplot2::is_ggplot(data[[1]])) {
if (length(data) > 1) { if (length(data) > 1) {
@ -2362,9 +2368,10 @@ wrap_plot_list <- function(data,
})() |> })() |>
align_axes() |> align_axes() |>
patchwork::wrap_plots( patchwork::wrap_plots(
guides = "collect", guides = guides,
axes = "collect", axes = axes,
axis_titles = "collect" axis_titles = axis_titles,
...
) )
if (!is.null(tag_levels)) { if (!is.null(tag_levels)) {
out <- out + patchwork::plot_annotation(tag_levels = tag_levels) out <- out + patchwork::plot_annotation(tag_levels = tag_levels)
@ -2383,15 +2390,19 @@ wrap_plot_list <- function(data,
cli::cli_abort("Can only wrap lists of {.cls ggplot} objects") cli::cli_abort("Can only wrap lists of {.cls ggplot} objects")
} }
if (!is.null(axis.font.family)) {
if (inherits(x = out, what = "patchwork")) { if (inherits(x = out, what = "patchwork")) {
out & out <- out &
ggplot2::theme(axis.text = ggplot2::element_text(family = axis.font.family)) ggplot2::theme(axis.text = ggplot2::element_text(family = axis.font.family))
} else { } else {
out + out <- out +
ggplot2::theme(axis.text = ggplot2::element_text(family = axis.font.family)) ggplot2::theme(axis.text = ggplot2::element_text(family = axis.font.family))
} }
} }
out
}
#' Aligns axes between plots #' Aligns axes between plots
#' #'
@ -2400,7 +2411,7 @@ wrap_plot_list <- function(data,
#' @returns list of ggplot2 objects #' @returns list of ggplot2 objects
#' @export #' @export
#' #'
align_axes <- function(...) { align_axes <- function(..., x.axis = TRUE, y.axis = TRUE) {
# https://stackoverflow.com/questions/62818776/get-axis-limits-from-ggplot-object # https://stackoverflow.com/questions/62818776/get-axis-limits-from-ggplot-object
# https://github.com/thomasp85/patchwork/blob/main/R/plot_multipage.R#L150 # https://github.com/thomasp85/patchwork/blob/main/R/plot_multipage.R#L150
if (ggplot2::is_ggplot(..1)) { if (ggplot2::is_ggplot(..1)) {
@ -2418,7 +2429,16 @@ align_axes <- function(...) {
xr <- clean_common_axis(p, "x") xr <- clean_common_axis(p, "x")
suppressWarnings({ suppressWarnings({
p |> purrr::map(~ .x + ggplot2::xlim(xr) + ggplot2::ylim(yr)) purrr::map(p, \(.x){
out <- .x
if (isTRUE(x.axis)) {
out <- out + ggplot2::xlim(xr)
}
if (isTRUE(y.axis)) {
out <- out + ggplot2::ylim(yr)
}
out
})
}) })
} }
@ -4026,7 +4046,7 @@ simple_snake <- function(data){
#### Current file: /Users/au301842/FreesearchR/R//hosted_version.R #### Current file: /Users/au301842/FreesearchR/R//hosted_version.R
######## ########
hosted_version <- function()'v25.7.2-250722' hosted_version <- function()'v25.8.1-250808'
######## ########
@ -5015,6 +5035,7 @@ ggeulerr <- function(
#' D = sample(c(TRUE, FALSE, FALSE, FALSE), 50, TRUE) #' D = sample(c(TRUE, FALSE, FALSE, FALSE), 50, TRUE)
#' ) |> plot_euler("A", c("B", "C"), "D", seed = 4) #' ) |> plot_euler("A", c("B", "C"), "D", seed = 4)
#' mtcars |> plot_euler("vs", "am", seed = 1) #' mtcars |> plot_euler("vs", "am", seed = 1)
#' mtcars |> plot_euler("vs", "am", "cyl", seed = 1)
plot_euler <- function(data, pri, sec, ter = NULL, seed = 2103) { plot_euler <- function(data, pri, sec, ter = NULL, seed = 2103) {
set.seed(seed = seed) set.seed(seed = seed)
if (!is.null(ter)) { if (!is.null(ter)) {
@ -5029,10 +5050,9 @@ plot_euler <- function(data, pri, sec, ter = NULL, seed = 2103) {
na.omit() |> na.omit() |>
plot_euler_single() plot_euler_single()
}) })
# browser()
# names(out)
wrap_plot_list(out,title=glue::glue("Grouped by {get_label(data,ter)}")) wrap_plot_list(out,title=glue::glue("Grouped by {get_label(data,ter)}"))
# patchwork::wrap_plots(out, guides = "collect") # patchwork::wrap_plots(out)
} }
#' Easily plot single euler diagrams #' Easily plot single euler diagrams
@ -5062,8 +5082,8 @@ plot_euler_single <- function(data) {
legend.position = "none", legend.position = "none",
# panel.grid.major = element_blank(), # panel.grid.major = element_blank(),
# panel.grid.minor = element_blank(), # panel.grid.minor = element_blank(),
# axis.text.y = element_blank(), axis.text.y = ggplot2::element_blank(),
# axis.title.y = element_blank(), axis.title.y = ggplot2::element_blank(),
text = ggplot2::element_text(size = 20), text = ggplot2::element_text(size = 20),
axis.text = ggplot2::element_blank(), axis.text = ggplot2::element_blank(),
# plot.title = element_blank(), # plot.title = element_blank(),
@ -5087,6 +5107,7 @@ plot_euler_single <- function(data) {
#' #'
#' @examples #' @examples
#' mtcars |> plot_hbars(pri = "carb", sec = "cyl") #' mtcars |> plot_hbars(pri = "carb", sec = "cyl")
#' mtcars |> plot_hbars(pri = "carb", sec = "cyl", ter="am")
#' mtcars |> plot_hbars(pri = "carb", sec = NULL) #' mtcars |> plot_hbars(pri = "carb", sec = NULL)
plot_hbars <- function(data, pri, sec, ter = NULL) { plot_hbars <- function(data, pri, sec, ter = NULL) {
out <- vertical_stacked_bars(data = data, score = pri, group = sec, strata = ter) out <- vertical_stacked_bars(data = data, score = pri, group = sec, strata = ter)
@ -5496,6 +5517,8 @@ plot_violin <- function(data, pri, sec, ter = NULL) {
ds <- list(data) ds <- list(data)
} }
# browser()
suppressWarnings({
out <- lapply(ds, \(.ds){ out <- lapply(ds, \(.ds){
rempsyc::nice_violin( rempsyc::nice_violin(
data = .ds, data = .ds,
@ -5507,6 +5530,7 @@ plot_violin <- function(data, pri, sec, ter = NULL) {
}) })
wrap_plot_list(out, title = glue::glue("Grouped by {get_label(data,ter)}")) wrap_plot_list(out, title = glue::glue("Grouped by {get_label(data,ter)}"))
})
# patchwork::wrap_plots(out,guides = "collect") # patchwork::wrap_plots(out,guides = "collect")
} }

34
inst/apps/FreesearchR/app.R
View file

@ -49,7 +49,7 @@ library(rlang)
#### Current file: /Users/au301842/FreesearchR/R//app_version.R #### Current file: /Users/au301842/FreesearchR/R//app_version.R
######## ########
app_version <- function()'25.7.3' app_version <- function()'25.8.1'
######## ########
@ -2338,7 +2338,10 @@ line_break <- function(data, lineLength = 20, force = FALSE) {
#' @param data list of ggplot2 objects #' @param data list of ggplot2 objects
#' @param tag_levels passed to patchwork::plot_annotation if given. Default is NULL #' @param tag_levels passed to patchwork::plot_annotation if given. Default is NULL
#' @param title panel title #' @param title panel title
#' @param ... ignored for argument overflow #' @param guides passed to patchwork::wrap_plots()
#' @param axes passed to patchwork::wrap_plots()
#' @param axis_titles passed to patchwork::wrap_plots()
#' @param ... passed to patchwork::wrap_plots()
#' #'
#' @returns list of ggplot2 objects #' @returns list of ggplot2 objects
#' @export #' @export
@ -2347,6 +2350,9 @@ wrap_plot_list <- function(data,
tag_levels = NULL, tag_levels = NULL,
title = NULL, title = NULL,
axis.font.family = NULL, axis.font.family = NULL,
guides = "collect",
axes = "collect",
axis_titles = "collect",
...) { ...) {
if (ggplot2::is_ggplot(data[[1]])) { if (ggplot2::is_ggplot(data[[1]])) {
if (length(data) > 1) { if (length(data) > 1) {
@ -2362,9 +2368,9 @@ wrap_plot_list <- function(data,
})() |> })() |>
align_axes() |> align_axes() |>
patchwork::wrap_plots( patchwork::wrap_plots(
guides = "collect", guides = guides,
axes = "collect", axes = axes,
axis_titles = "collect", axis_titles = axis_titles,
... ...
) )
if (!is.null(tag_levels)) { if (!is.null(tag_levels)) {
@ -2384,15 +2390,19 @@ wrap_plot_list <- function(data,
cli::cli_abort("Can only wrap lists of {.cls ggplot} objects") cli::cli_abort("Can only wrap lists of {.cls ggplot} objects")
} }
if (!is.null(axis.font.family)) {
if (inherits(x = out, what = "patchwork")) { if (inherits(x = out, what = "patchwork")) {
out & out <- out &
ggplot2::theme(axis.text = ggplot2::element_text(family = axis.font.family)) ggplot2::theme(axis.text = ggplot2::element_text(family = axis.font.family))
} else { } else {
out + out <- out +
ggplot2::theme(axis.text = ggplot2::element_text(family = axis.font.family)) ggplot2::theme(axis.text = ggplot2::element_text(family = axis.font.family))
} }
} }
out
}
#' Aligns axes between plots #' Aligns axes between plots
#' #'
@ -4036,7 +4046,7 @@ simple_snake <- function(data){
#### Current file: /Users/au301842/FreesearchR/R//hosted_version.R #### Current file: /Users/au301842/FreesearchR/R//hosted_version.R
######## ########
hosted_version <- function()'v25.7.3-250808' hosted_version <- function()'v25.8.1-250808'
######## ########
@ -5025,6 +5035,7 @@ ggeulerr <- function(
#' D = sample(c(TRUE, FALSE, FALSE, FALSE), 50, TRUE) #' D = sample(c(TRUE, FALSE, FALSE, FALSE), 50, TRUE)
#' ) |> plot_euler("A", c("B", "C"), "D", seed = 4) #' ) |> plot_euler("A", c("B", "C"), "D", seed = 4)
#' mtcars |> plot_euler("vs", "am", seed = 1) #' mtcars |> plot_euler("vs", "am", seed = 1)
#' mtcars |> plot_euler("vs", "am", "cyl", seed = 1)
plot_euler <- function(data, pri, sec, ter = NULL, seed = 2103) { plot_euler <- function(data, pri, sec, ter = NULL, seed = 2103) {
set.seed(seed = seed) set.seed(seed = seed)
if (!is.null(ter)) { if (!is.null(ter)) {
@ -5040,9 +5051,8 @@ plot_euler <- function(data, pri, sec, ter = NULL, seed = 2103) {
plot_euler_single() plot_euler_single()
}) })
# browser() # browser()
# names(out)
wrap_plot_list(out,title=glue::glue("Grouped by {get_label(data,ter)}")) wrap_plot_list(out,title=glue::glue("Grouped by {get_label(data,ter)}"))
# patchwork::wrap_plots(out, guides = "collect") # patchwork::wrap_plots(out)
} }
#' Easily plot single euler diagrams #' Easily plot single euler diagrams
@ -5072,8 +5082,8 @@ plot_euler_single <- function(data) {
legend.position = "none", legend.position = "none",
# panel.grid.major = element_blank(), # panel.grid.major = element_blank(),
# panel.grid.minor = element_blank(), # panel.grid.minor = element_blank(),
# axis.text.y = element_blank(), axis.text.y = ggplot2::element_blank(),
# axis.title.y = element_blank(), axis.title.y = ggplot2::element_blank(),
text = ggplot2::element_text(size = 20), text = ggplot2::element_text(size = 20),
axis.text = ggplot2::element_blank(), axis.text = ggplot2::element_blank(),
# plot.title = element_blank(), # plot.title = element_blank(),