Section outline

  • Preparation of R for enrichment analysis tool – 4.12.2020

    Two options are available to perform the exercises of the enrichment analysis course.

    1. Local installation of R and RStudio:

    Install R:

    https://cran.r-project.org/

     

    Install RStudio (free version is fine)

    https://rstudio.com/products/rstudio/download/

     

    Once R and RStudio are installed, open RStudio only (no need to open R, RStudio connects automatically to your installation of R).

     

    Install the necessary packages using the following commands:

    install.packages("BiocManager”)

    BiocManager::install(c("org.Hs.eg.db", "clusterProfiler", "pathview"))

     

     

    2. Another option is to create an R session on the RStudio cloud:

    https://rstudio.cloud/

    Create a free account.  Then, go to “Workspace” and create a new project by clicking on “New project”. Once the new project has been deployed, install the necessary packages using the following commands:

    install.packages("BiocManager”)

    BiocManager::install(c("org.Hs.eg.db", "clusterProfiler", "pathview"))