Bioinformatics

前言

推荐阅读

• https://www.bioconductor.org

• Orchestrating Single-Cell Analysis with Bioconductor

• Seurat

• DESeq2

• clusterProfiler、Disease Ontology Semantic and Enrichment analysis

• monocle2

• https://cole-trapnell-lab.github.io/monocle3/

• 系统发育树

• plink 2.0

前提条件

pkgs <- c(
          "gggenes",
          )

for (pkg in pkgs) {
    if (!require(pkg, character.only = TRUE)) {
        install.packages(pkg)
    }
}

biopkgs <- c("SingleCellExperiment", "Biostrings","AnnotationHub", "biomaRt","rtracklayer", "BSgenome","scuttle","scater","scran","biobroom","qvalue","DESeq2","EnhancedVolcano","clusterProfiler"
             )

for (pkg in biopkgs) {
    if (!require(pkg, character.only = TRUE)) {
        BiocManager::install(biopkgs)
    }
}