CAGEfightR

CAGEfightR is an R-package for analyzing Cap Analysis of Gene Expression (CAGE) data in Bioconductor.

Installation

Install the most recent stable version from Bioconductor:

if (!requireNamespace("BiocManager", quietly=TRUE))
    install.packages("BiocManager")
BiocManager::install("CAGEfightR")

Or install the development version directly from GitHub using devtools:

# Install CRAN packages and CAGEfightR
devtools::install_github("MalteThodberg/CAGEfightR", build_vignettes = TRUE)

When using devtools you might need to manually install dependencies from Bioconductor (See DESRIPTION for a list of these).

See the vignette for an in-depth guide to using CAGEfightR!