In FerrenaAlexander/FerrenaBulkRNAseq: Pipeline for analysis of bulkRNAseq data

knitr::opts_chunk$set(
  collapse = TRUE,
  comment = "#>",
  fig.path = "man/figures/README-",
  out.width = "100%"
)

FerrenaBulkRNAseq

This package goes through bulkRNAseq data anlysis with helpful basic functions for comparative Differential Expression (DE) analysis and Gene Set Enrichment Analysis(GSEA). DE testing uses DESeq2 and GSEA uses FGSEA. Plotting is a big part of this package and relies on ggplot2 and the general tidyverse suite.

Installation

You can install from GitHub with:

# install.packages("devtools")
devtools::install_github("FerrenaAlexander/FerrenaBulkRNAseq")

The dependency package fgsea is a bioconductor package which seems to require compilation to install, so if prompted you should install that with compilation.