安装R包的五种方式以及基础常用R包的下载安装代码

2023-11-19 20:51| 来源: 网络整理| 查看: 265

#普通包的安装

##生物学相关

###github包的安装

###实在不行下载到本地放在lib文件下

#####自己写一个

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三种R包的下载安装方式 ##普通包的安装 install.packages("praise") library(praise) praise() #生物学相关 install.packages("BiocManager") library(BiocManager) BiocManager::install(c("GenomicFeatures", "AnnotationDbi")) library(AnnotationDbi) library(GenomicFeatures) ##github包的安装 install.packages("devtools") library(devtools) install_github()

常用基础R包安装语句，如果已安装则不会重复安装

if(!require("tidyr")) install.packages("tidyr",update = F,ask = F) if(!require("dplyr")) install.packages("dplyr",update = F,ask = F) if(!require("stringr")) install.packages("stringr",update = F,ask = F) if(!require("stringi")) install.packages("stringi",update = F,ask = F) if(!require("ggplot2")) install.packages("ggplot2",update = F,ask = F) if(!require("data.table")) install.packages("data.table",update = F,ask = F) if(!require("ggrepel")) install.packages("ggrepel",update = F,ask = F) if(!require("devtools")) install.packages("devtools",update = F,ask = F) if(!require("pheatmap")) install.packages("pheatmap",update = F,ask = F) if(!require("ggfortify")) install.packages("ggfortify",update = F,ask = F) if(!require("survival")) install.packages("survival",update = F,ask = F) if(!require("survminer")) install.packages("survminer",update = F,ask = F) if(!require("glmnet")) install.packages("glmnet",update = F,ask = F) if(!require("ggpubr")) install.packages("ggpubr",update = F,ask = F) if(!require("ggsignif")) install.packages("ggsignif",update = F,ask = F) if(!require("tibble")) install.packages("tibble",update = F,ask = F) if(!require("cowplot")) install.packages("cowplot",update = F,ask = F) if(!require("timeROC")) install.packages("timeROC",update = F,ask = F) if(!require("survivalROC")) install.packages("survivalROC",update = F,ask = F) if(!require("randomForest")) install.packages("randomForest",update = F,ask = F) if(!require("Hmisc")) install.packages("Hmisc",update = F,ask = F) if(!require("jsonlite")) install.packages("jsonlite",update = F,ask = F) if(!require("corrplot")) install.packages("corrplot",update = F,ask = F) if(!require("R.utils")) install.packages("R.utils",update = F,ask = F) if(!require("purrr")) install.packages("purrr",update = F,ask = F) if(!require("future.apply")) install.packages("future.apply",update = F,ask = F) if(!require("pkgmaker")) install.packages("pkgmaker",update = F,ask = F) if(!require("rngtools")) install.packages("rngtools",update = F,ask = F) if(!require("NMF")) install.packages("NMF",update = F,ask = F) if(!require("bigmemory")) install.packages("bigmemory",update = F,ask = F) if(!require("caret")) install.packages("caret",update = F,ask = F) if(!require("forcats")) install.packages("forcats",update = F,ask = F) if(!require("XML")) install.packages("XML",update = F,ask = F) if(!require("GOplot")) install.packages("GOplot",update = F,ask = F) if(!require("export")) install.packages("export",update = F,ask = F) if(!require("limma")) BiocManager::install("limma",update = F,ask = F) if(!require("Biobase")) BiocManager::install("Biobase",update = F,ask = F) if(!require("IRanges")) BiocManager::install("IRanges",update = F,ask = F) if(!require("DO.db")) BiocManager::install("DO.db",update = F,ask = F) if(!require("GO.db")) BiocManager::install("GO.db",update = F,ask = F) if(!require("fgsea")) BiocManager::install("fgsea",update = F,ask = F) if(!require("gridGraphics")) BiocManager::install("gridGraphics",update = F,ask = F) if(!require("clusterProfiler")) BiocManager::install("clusterProfiler",update = F,ask = F) if(!require("GEOquery")) BiocManager::install("GEOquery",update = F,ask = F) if(!require("hugene10sttranscriptcluster.db")) BiocManager::install("hugene10sttranscriptcluster.db",update = F,ask = F) if(!require("DOSE")) BiocManager::install("DOSE",update = F,ask = F) if(!require("GSEABase")) BiocManager::install("GSEABase",update = F,ask = F) if(!require("enrichplot")) BiocManager::install("enrichplot",update = F,ask = F) if(!require("RTCGA.clinical")) BiocManager::install("RTCGA.clinical",update = F,ask = F) if(!require("bladderbatch")) BiocManager::install("bladderbatch",update = F,ask = F) if(!require("sva")) BiocManager::install("sva",update = F,ask = F) if(!require("DESeq2")) BiocManager::install("DESeq2",update = F,ask = F) if(!require("edgeR")) BiocManager::install("edgeR",update = F,ask = F) if(!require("pathview")) BiocManager::install("pathview",update = F,ask = F) if(!require("vsn")) BiocManager::install("vsn",update = F,ask = F)

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