A R package to offer study material for fans in biotrainee
Note : Please don't use it if you are not the fan of our biotrainee, Thanks.
source("http://bioconductor.org/biocLite.R")
install.packages('devtools')
if (!requireNamespace("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("jmzeng1314/biotrainee")
library(biotrainee)But if you are in China, you should use the codes below:
rm(list = ls())
options()$repos
options()$BioC_mirror
options(BioC_mirror="https://mirrors.ustc.edu.cn/bioc/")
options("repos" = c(CRAN="https://mirrors.tuna.tsinghua.edu.cn/CRAN/"))
options()$repos
options()$BioC_mirror
# https://bioconductor.org/packages/release/bioc/html/GEOquery.html
if (!requireNamespace("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("KEGG.db",ask = F,update = F)
BiocManager::install(c('airway','DESeq2','edgeR','limma'),ask = F,update = F)
BiocManager::install(c('ALL','CLL','pasilla','clusterProfiler'),ask = F,update = F)
It will install many other packages for you automately, such as : ALL, CLL, pasilla, airway ,limma，DESeq2，clusterProfiler , that's why it will take a long time to finish if all of these packages are not installed before in your computer.