Installing necessary packages

Open RStudio and install the following packages. Say Yes if it asks you to use a personal library, say Yes to update any outdated pacakges, say No to install pacakges from source.

# Install packages from CRAN (can also use the install menu in RStudio)
install.packages("pheatmap")
install.packages("repmis")
install.packages("reshape2")
install.packages("gplots")
install.packages("RColorBrewer")
install.packages("ggplot2")

# Install bioconductor packages:
source("https://bioconductor.org/biocLite.R")
biocLite("DESeq2")

We could also install several packages in one command (e.g. install.packages("pheatmap", "repmis") see ?install.packages()), but we do it separately now in case we run into problems.

Load the packages after installing with library(package_name)