A while ago I published a post on how to install some basic packages in R. This post goes further by sharing with you an Rscript (as part of another Ubuntu customization script) to install many popular R packages.
I’ve written the Rscript to be run after a fresh installation of Ubuntu. The Rscript is called by the Ubuntu customization script (yet to be published) and should install some basic and popular R packages.
Below is a Gist. For the repo click here.
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| #################################### | |
| ## R environment customization script | |
| # to automate package installation | |
| # repo is maintained at http://bit.ly/r-customize-script | |
| #################################### | |
| ## To run execute in a terminal: | |
| # Rscript r-customize.R # depends on R being installed | |
| #################################### | |
| ## Some relevant links | |
| # Rstudio's Quick list of useful R packages: http://bit.ly/useful_R_packages | |
| #################################### | |
| ## Basic packages | |
| ################# | |
| install.packages("devtools") | |
| library(devtools) # to install from source (eg; github) | |
| install.packages("downloader") | |
| install.packages("checkpoint") | |
| install.packages("rJava") | |
| install.packages("xlsxjars") | |
| install.packages("xlsx") | |
| install.packages("data.table") | |
| install.packages(c("Hmisc", "jpeg")) | |
| install.packages("RJSONIO") # also required for "WDI" | |
| # DataTables see: https://rstudio.github.io/DT/ | |
| # installs an R interface to the Js DataTables | |
| # will ask to select a server | |
| if (!requireNamespace('htmlwidgets') || packageVersion('htmlwidgets') <= '0.3.2') | |
| install_github('ramnathv/htmlwidgets') | |
| install_github('rstudio/DT') | |
| install.packages("xtable") | |
| # Web scraping | |
| ############## | |
| install.packages("XML") # read & create XML docs | |
| install.packages("rvest") # XML & httr wrappers to make it easy to download & manipulate html & xml. | |
| install.packages(c("httr", "rjson")) # required for "Rfacebook" | |
| install.packages("jsonlite") | |
| install.packages("RCurl") | |
| ## Data Wrangling | |
| ################# | |
| install.packages(c("dplyr", "reshape2")) | |
| install.packages("tidyr") | |
| install.packages("sqldf") # Manipulate R data frames using SQ | |
| ## Swirl | |
| # Learn R, in R. http://swirlstats.com | |
| install.packages("swirl") | |
| # install_github("swirldev/swirl") # latest development version | |
| # Visualization | |
| ############### | |
| install.packages("ggplot2") | |
| install.packages("ggvis") | |
| install.packages("gridExtra") | |
| # R interface to dygraphs | |
| if (!requireNamespace('htmlwidgets')) | |
| install_github('ramnathv/htmlwidgets') | |
| install_github('rstudio/dygraphs') | |
| # Shiny Apps | |
| install_github('rstudio/shinyapps') | |
| # download("https://github.com/rstudio/shinyapps/archive/master.tar.gz", "shinyapps.tar.gz") | |
| # install.packages("shinyapps.tar.gz", repos = NULL, type = "source") | |
| # Plotly | |
| install_github("ropensci/plotly") | |
| # download("https://github.com/ropensci/plotly/archive/master.tar.gz", "plotly.tar.gz") | |
| # install.packages("plotly.tar.gz", repos = NULL, type = "source") | |
| install.packages("maptools") # for shapefiles | |
| # install.packages("rgeos") # required by maptools | |
| # rMaps (still under development) # https://rmaps.github.io/ | |
| # rCharts required for some (experimental) features | |
| if (!requireNamespace('rCharts')) | |
| install_github('ramnathv/rCharts@dev') | |
| install_github('ramnathv/rMaps') | |
| # Google Vis | |
| install.packages("googleVis") | |
| ## Leaftlet | |
| # R package to create interactive web-maps based on the Leaflet JavaScript library | |
| install.packages("leafletR") | |
| # install_github("chgrl/leafletR") | |
| install_github("rstudio/leaflet") # by Rstudio | |
| # Documents | |
| ########### | |
| # for Knitr | |
| install.packages("yaml"); install.packages("htmltools"); install.packages("rmarkdown") | |
| # Slidify & Libraries | |
| install_github('ramnathv/slidify') | |
| install_github('ramnathv/slidifyLibraries') | |
| # Spatial & GIS | |
| ############### | |
| install.packages("sp") # classes and methods for spatial data | |
| install.packages("maptools") # Tools for Reading and Handling Spatial Objects | |
| install.packages("maps") # Draw Geographical Maps | |
| install.packages("ggmap") # Spatial Visualization with Google Maps and OpenStreetMap | |
| install.packages("raster") | |
| install.packages("mapdata") | |
| install.packages("mapproj") | |
| install.packages("gpclib") | |
| install.packages("rdgal") | |
| install.packages("Rgooglemaps") | |
| install.packages("rgeos") | |
| install.packages("rasterVis") | |
| # Connections | |
| ############# | |
| # API's | |
| install.packages("streamR") # Access to Twitter Streaming API via R # github: https://github.com/pablobarbera/streamR | |
| install.packages("Rfacebook") # provides an interface to the Facebook API | |
| # Connect to Databases | |
| install.packages("DBI") # database interface (DBI) definition for communication between R and relational database management systems | |
| install.packages("RMySQL") # DBI-compliant Interface to MySQL and MariaDB Databases | |
| install.packages("dbConnect") # Provides a graphical user interface to connect with databases that use MySQL | |
| # Data scources | |
| install.packages("Quandl") | |
| install.packages("WDI") #github.com/vincentarelbundock/WDI | |
| # Big Data | |
| ########## | |
| # Packages to deal with datasets larger than RAM | |
| install.packages("bigmemory") # Manage massive matrices with shared memory and memory-mapped files | |
| # Medical packages | |
| install.packages("oro.dicom") | |
| # Machine Learning & Predictive Modeling | |
| ######################################## | |
| ## caret – Classification And REgression Training | |
| install.packages("caret") | |
| install.packages("e1071") # needed when fitting a model in caret |
Ibrahim El Merehbi 