occdn.limour.top/source/_posts/通过conda安装纯净环境的r绘图合集.md

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title: 通过conda安装纯净环境的R绘图合集 tags: [] id: '1561' categories:

• - 生信
• • 绘图 date: 2022-02-24 21:14:49 ---

• conda create -n rplot -c conda-forge r-base=4.1.2 -y

• conda activate rplot

• conda install -c conda-forge r-seurat=4.1.0 -y

• conda install -c conda-forge r-irkernel=1.3 -y

• R

• IRkernel::installspec(name='rplot', displayname='r-plot')

• q()

火山图

• conda install -c bioconda bioconductor-enhancedvolcano=1.12.0 -y

和弦图

• conda install -c conda-forge r-circlize=0.4.14 -y

热图

• conda install -c bioconda bioconductor-complexheatmap=2.10.0 -y
• conda install -c conda-forge r-pheatmap=1.0.12 -y

调色板

• conda install -c conda-forge r-ggsci=2.9 -y

iRGSEA

• conda install -c conda-forge r-biocmanager=1.30.16 -y
• conda install -c conda-forge r-devtools=2.4.3 -y
• conda install -c conda-forge r-domc=1.3.8 -y

• R

  cran.packages <- c("msigdbr", "dplyr", "purrr", "stringr","magrittr",
                 "RobustRankAggreg", "tibble", "reshape2", "ggsci",
                 "tidyr", "aplot", "ggfun", "ggplotify", "ggridges",
                 "gghalves", "Seurat", "SeuratObject", "methods",
                 "devtools", "BiocManager","data.table","doParallel",
                 "doRNG")
  install.packages(cran.packages, ask = F, update = F)
  bioconductor.packages <- c("GSEABase", "AUCell", "SummarizedExperiment",
                         "singscore", "GSVA", "ComplexHeatmap", "ggtree",
                         "Nebulosa")
  BiocManager::install(bioconductor.packages, ask = F, update = F)
  devtools::install_local('~/github_repo/UCell-master.zip')
  devtools::install_local('~/github_repo/irGSEA-master.zip')
  

DIY

• conda install -c conda-forge r-tidyverse=1.3.1 -y
• conda install -c conda-forge r-ggdendro=0.1.23 -y
• conda install -c conda-forge r-ggpubr=0.4.0 -y