Chapter 4 R packages required

First, install the most recent version of R.

Second, install R packages below.

# install the package BiocManager
install.packages("BiocManager")

# install packages from Bioconductor
BiocManager::install(c("remotes","tidyverse","ggupset","igraph","dnet"), dependencies=T)

# install the package XGR
BiocManager::install("hfang-bristol/XGR", dependencies=T)

Download differential genes (see List of differentially expressed genes above) from DE_genes.txt.gz, which will be imported into R for analysis. All analysis below assumes that DE_genes.txt.gz locates at your current working directory of R; please check this via getwd().