Installation Guide

Before you start; you will have to install R and/or RStudio. You can install DEBrowser from bioconductor or from the source code. Install the required dependencies by running the following commands in R or RStudio. Please check Operating System Dependencies section, in case your operating system requires packages to be installed.

A.1 Bioconductor Installation (Recommended):

source("https://www.bioconductor.org/biocLite.R")
biocLite("debrowser")

A.2 Bioconductor Installation - Developer Version:

if (!requireNamespace("BiocManager", quietly=TRUE))
install.packages("BiocManager")
BiocManager::install("debrowser", version = "devel")

B. Installation instructions from source code:

install.packages("devtools") ## If you haven't installed devtools, you can easily install it by using this command
library("devtools")
install_github("UMMS-Biocore/debrowser", build_vignettes = TRUE)

Alternatively, you can download the source code from here as a compressed format. Then you need to decompress and install with following command:

R CMD INSTALL debrowser-develop  ##where folder name is debrowser-develop

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After debrowser installation, you can load and start DEBrowser by following commands:

library(debrowser)
startDEBrowser()

Once you run startDEBrowser() shiny will launch a web browser which is ready to use!

For more information about DEBrowser, please visit our Quick-start Guide section within documentation.

Operating System Dependencies

On Fedora/Red Hat/CentOS, these packages have to be installed:

openssl-devel, libxml2-devel, libcurl-devel, libpng-devel

On Ubuntu 18.04 LTS, you can install required packages by following command:

sudo apt-get install libcurl4-openssl-dev libssl-dev libv8-3.14-dev udunits-bin libudunits2-* libxml2-dev