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install_uengs.R
Carine Rey authored
install_uengs.R 1.08 KiB
options(Ncpus = parallel::detectCores())
options(repos = c(CRAN = "https://cran.rstudio.com"))
# Installation of standard R packages
install.packages(c("remotes",
"Seurat",
"mvoutlier",
"preseqR"))
# Installation of packages with BiocManager
install.packages("BiocManager")
BiocManager::install(
c("biomaRt",
"clusterProfiler",
"apeglm",
"scater",
"rhdf5",
"idr"
), ask = FALSE)
BiocManager::install(c("eisaR",
"BSgenome",
"fishpond",
"GenomicFeatures"))
install.packages("devtools")
devtools::install_github("COMBINE-lab/roe")
# Install R package from GitHub
#remotes::install_github("satijalab/seurat-data", "seurat5", quiet = TRUE)
#remotes::install_github("satijalab/azimuth", "seurat5", quiet = TRUE)
#remotes::install_github("satijalab/seurat-wrappers", "seurat5", quiet = TRUE)
#Serat Wrapper
install.packages(c("hwriter",
"RcppParallel",
"latticeExtra"))
BiocManager::install("dada2")