- bioconductor-limma - bioconductor-complexheatmap - bioconductor-rtracklayer 要装的R包可以在conda上搜索:https://anaconda.org/search?q=DESeq2 conda install -c bioconda bioconductor-deseq2 如果想要安装Github上的R包,需要自己手动在conda创建这个安装包 (要有一个conda的账号) conda skeleton cran <gith...
conda install -y r-getopt r-tidyverse r-ggplot2=3.3.5 bioconductor-limma bioconductor-edger bioconductor-deseq2 bioconductor-clusterprofiler bioconductor-org.hs.eg.db=3.13.0 ## 或者使用mamba安装:mamba install -y r-getopt r-tidyverse r-ggplot2=3.3.5 bioconductor-limma bioconductor-edger bioconductor...
install.packages(source_repo, repos=NULL, type="source") } } 接下来是bioconductor的 专门存放生物信息学相关的包,代码如下所示: BioCdep <- c("SingleR","limma","BiocFileCache","AnnotationHub", "ExperimentHub","celldex","scDblFinder") newPackages <- BioCdep[!(BioCdep %in% installed.packages()...
options(repos=" ") #换镜像channels install.packages("tidyverse") 来自bioconductor:DESeq2,edgeR,GEOquery,ClusterProfiler,limma,org.Hs.eg.db,PCAtools,EnhancedVolcano options(BioC_mirror=" ") if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("limma") ...
mamba install python=3.7.4 1. 2. ,默认conda解析软件依赖时优先考虑允许的最高版本,设置通道优先级权限高于软件版本新旧后,conda会能更快的解决依赖关系,避免defaults和conda-forge通道的奇怪组合导致软件依赖解析迟迟不能将结束的问题:conda config --set channel_priority strict(这个命令只需要运行一次)。
接下来是bioconductor的 专门存放生物信息学相关的包,代码如下所示: 代码语言:javascript 复制 BioCdep<-c("SingleR","limma","BiocFileCache","AnnotationHub","ExperimentHub","celldex","scDblFinder")newPackages<-BioCdep[!(BioCdep%in%installed.packages()[,"Package"])]if(length(newPackages)){BiocManager:...
Dear all, We are using Travis for continuous integration. Our code base depends on a number of Python and R/Bioconductor packages that I am installing with Conda. As you may know, Travis builds for open-source projects come with resource...
pip install pip -U pip config set global.index-url https://pypi.tuna.tsinghua.edu.cn/simple 1. 2. R包安装镜像 CRAN和Bioconductor的镜像 安装前现运行这几句话,或把这几句话放在~/.Rprofile或~/.Profile.site文件下 (Windows里面的路径是C:\Program Files\R\R-3.6.1\etc)。
options(BioC_mirror="https://mirrors.bfsu.edu.cn/bioconductor")if(!requireNamespace("BiocManager", quietly =TRUE))install.packages("BiocManager") BiocManager::install("DESeq2") 基本包清华镜像 options(repos=structure(c(CRAN="https://mirrors.tuna.tsinghua.edu.cn/CRAN/"))) ...
bioconductor-genomicranges bioconductor-gosemsim bioconductor-graph bioconductor-hdf5array bioconductor-illuminaio bioconductor-impute bioconductor-iranges bioconductor-limma bioconductor-maftools bioconductor-massspecwavelet bioconductor-metapod bioconductor-mofa2 bioconductor-motifmatchr bioconductor-...