5 used R-packages for xMAPr

R: A Language and Environment for Statistical Computing (R Core Team (2023))
bookdown: Authoring Books and Technical Documents with R Markdown (Xie (2024))
rmarkdown: Dynamic Documents for R (Allaire et al. (2023))
data.table: Extension of data.frame (Barrett et al. (2024))
DT: A Wrapper of the JavaScript Library ‘DataTables’ (Xie, Cheng, and Tan (2023))
factoextra: Extract and Visualize the Results of Multivariate Data Analyses (Kassambara and Mundt (2020))
FactoMineR: Multivariate Exploratory Data Analysis and Data Mining (Husson et al. (2023))
ggrepel: Automatically Position Non-Overlapping Text Labels with ‘ggplot2’ (Slowikowski (2024))
ggsignif: Significance Brackets for ‘ggplot2’ (Ahlmann-Eltze and Patil (2022))
gridExtra: Miscellaneous Functions for “Grid” Graphics ((R-gridExtra?))
heatmaply: Interactive Cluster Heat Maps Using ‘plotly’ (Galili and O’Callaghan (2023))
knitr: A General-Purpose Package for Dynamic Report Generation in R (Xie (2023))
magrittr: A Forward-Pipe Operator for R (Bache and Wickham (2022))
minpack.lm: R Interface to the Levenberg-Marquardt Nonlinear Least-Squares Algorithm Found in MINPACK, Plus Support for Bounds ((R-minpack.lm?))
plotly: Create Interactive Web Graphics via ‘plotly.js’ (Sievert et al. (2023))
RColorBrewer: ColorBrewer Palettes ((R-RColorBrewer?))
reshape: Flexibly Reshape Data ((R-reshape?))
reshape2: Flexibly Reshape Data: A Reboot of the Reshape Package ((R-reshape2?))
rlang: Functions for Base Types and Core R and ‘Tidyverse’ Features (Henry and Wickham (2024))
scales: Scale Functions for Visualization (Wickham, Pedersen, and Seidel (2023))
shiny: Web Application Framework for R (Chang et al. (2023))
shinyalert: Easily Create Pretty Popup Messages (Modals) in ‘Shiny’ (Attali and Edwards (2021))
shinyBS: Twitter Bootstrap Components for Shiny (Bailey (2022))
shinydashboard: Create Dashboards with ‘Shiny’ (Chang and Borges Ribeiro (2021))
shinyFiles: A Server-Side File System Viewer for Shiny (Pedersen et al. (2022))
shinyjs: Easily Improve the User Experience of Your Shiny Apps in Seconds (Attali (2021))
shinyWidgets: Custom Inputs Widgets for Shiny (Perrier, Meyer, and Granjon (2023))
tidyverse: Easily Install and Load the ‘Tidyverse’ (Wickham (2023))

Ahlmann-Eltze, Constantin, and Indrajeet Patil. 2022. Ggsignif: Significance Brackets for Ggplot2. https://const-ae.github.io/ggsignif/.

Allaire, JJ, Yihui Xie, Christophe Dervieux, Jonathan McPherson, Javier Luraschi, Kevin Ushey, Aron Atkins, et al. 2023. Rmarkdown: Dynamic Documents for r. https://github.com/rstudio/rmarkdown.

Attali, Dean. 2021. Shinyjs: Easily Improve the User Experience of Your Shiny Apps in Seconds. https://deanattali.com/shinyjs/.

Attali, Dean, and Tristan Edwards. 2021. Shinyalert: Easily Create Pretty Popup Messages (Modals) in Shiny. https://github.com/daattali/shinyalert https://daattali.com/shiny/shinyalert-demo/.

Bache, Stefan Milton, and Hadley Wickham. 2022. Magrittr: A Forward-Pipe Operator for r. https://magrittr.tidyverse.org.

Bailey, Eric. 2022. shinyBS: Twitter Bootstrap Components for Shiny. https://ebailey78.github.io/shinyBS.

Barrett, Tyson, Matt Dowle, Arun Srinivasan, Jan Gorecki, Michael Chirico, and Toby Hocking. 2024. Data.table: Extension of ‘Data.frame‘. https://r-datatable.com.

Chang, Winston, and Barbara Borges Ribeiro. 2021. Shinydashboard: Create Dashboards with Shiny. http://rstudio.github.io/shinydashboard/.

Chang, Winston, Joe Cheng, JJ Allaire, Carson Sievert, Barret Schloerke, Yihui Xie, Jeff Allen, Jonathan McPherson, Alan Dipert, and Barbara Borges. 2023. Shiny: Web Application Framework for r. https://shiny.posit.co/.

Galili, Tal, and Alan O’Callaghan. 2023. Heatmaply: Interactive Cluster Heat Maps Using Plotly and Ggplot2. https://talgalili.github.io/heatmaply/.

Henry, Lionel, and Hadley Wickham. 2024. Rlang: Functions for Base Types and Core r and Tidyverse Features. https://rlang.r-lib.org.

Husson, Francois, Julie Josse, Sebastien Le, and Jeremy Mazet. 2023. FactoMineR: Multivariate Exploratory Data Analysis and Data Mining. http://factominer.free.fr.

Kassambara, Alboukadel, and Fabian Mundt. 2020. Factoextra: Extract and Visualize the Results of Multivariate Data Analyses. http://www.sthda.com/english/rpkgs/factoextra.

Pedersen, Thomas Lin, Vincent Nijs, Thomas Schaffner, and Eric Nantz. 2022. shinyFiles: A Server-Side File System Viewer for Shiny. https://github.com/thomasp85/shinyFiles.

Perrier, Victor, Fanny Meyer, and David Granjon. 2023. shinyWidgets: Custom Inputs Widgets for Shiny. https://github.com/dreamRs/shinyWidgets.

R Core Team. 2023. R: A Language and Environment for Statistical Computing. Vienna, Austria: R Foundation for Statistical Computing. https://www.R-project.org/.

Sievert, Carson, Chris Parmer, Toby Hocking, Scott Chamberlain, Karthik Ram, Marianne Corvellec, and Pedro Despouy. 2023. Plotly: Create Interactive Web Graphics via Plotly.js. https://plotly-r.com.

Slowikowski, Kamil. 2024. Ggrepel: Automatically Position Non-Overlapping Text Labels with Ggplot2. https://ggrepel.slowkow.com/.

Wickham, Hadley. 2023. Tidyverse: Easily Install and Load the Tidyverse. https://tidyverse.tidyverse.org.

Wickham, Hadley, Thomas Lin Pedersen, and Dana Seidel. 2023. Scales: Scale Functions for Visualization. https://scales.r-lib.org.

Xie, Yihui. 2023. Knitr: A General-Purpose Package for Dynamic Report Generation in r. https://yihui.org/knitr/.

———. 2024. Bookdown: Authoring Books and Technical Documents with r Markdown. https://github.com/rstudio/bookdown.

Xie, Yihui, Joe Cheng, and Xianying Tan. 2023. DT: A Wrapper of the JavaScript Library DataTables. https://github.com/rstudio/DT.

References

Ahlmann-Eltze, Constantin, and Indrajeet Patil. 2022. Ggsignif: Significance Brackets for Ggplot2. https://const-ae.github.io/ggsignif/.

Allaire, JJ, Yihui Xie, Christophe Dervieux, Jonathan McPherson, Javier Luraschi, Kevin Ushey, Aron Atkins, et al. 2023. Rmarkdown: Dynamic Documents for r. https://github.com/rstudio/rmarkdown.

Attali, Dean. 2021. Shinyjs: Easily Improve the User Experience of Your Shiny Apps in Seconds. https://deanattali.com/shinyjs/.

Attali, Dean, and Tristan Edwards. 2021. Shinyalert: Easily Create Pretty Popup Messages (Modals) in Shiny. https://github.com/daattali/shinyalert