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biorunR

An R package for running bioinformatic analyses. Includes wrapper functions for performing differential expression (DESeq2), geneset enrichment (GSEA, GSVA/ssGSEA, topGO), and data visualization (ggplot2).

Dependencies

  • classInt
  • DESeq2 (& ashr)
  • dplyr
  • fgsea
  • ggplot2
  • GSVA
  • Hmisc
  • magrittr
  • msigdbr
  • org.Hs.eg.db
  • RColorBrewer
  • tibble
  • topGO

Installation

if(!require("devtools", quietly = TRUE))
    install.packages("devtools")

devtools::install_github("nbay13/biorunr")

Usage

...