Please complete the following before the course

• Install R and RStudio. If you already have R installed, make sure you have an R version 4.0.0 or later. Due to substantive changes in R between versions 3 and 4, some code in the course materials will not work on earlier versions.

• Install necessary R packages by cutting and pasting the lines below into your RStudio console one at a time (if you get a prompt about installing from source, say “no”):

install.packages("BiocManager")
BiocManager::install("edgeR")
BiocManager::install("org.Mm.eg.db")
BiocManager::install("topGO")
BiocManager::install("KEGGREST")
BiocManager::install("gplots")
BiocManager::install("pathview")
BiocManager::install("Rgraphviz")
BiocManager::install("RColorBrewer")

Test the installations by cutting and pasting these lines into your RStudio console (don’t worry if you get messages about an object being masked):

library(edgeR)
library(org.Mm.eg.db)
library(topGO)
library(KEGGREST)
library(gplots)
library(pathview)
library(Rgraphviz)
library(RColorBrewer)

• If you are new to R, please work through the introductory R materials here