This repository contains the code for the interactive browser of EpiMap data resource.
The project's main site can be found at compbio.mit.edu/epimap.
You can run the browser directly on your computer using the code in this repository and the shiny
library in R as follows:
# Install shiny and other required packages:
pkgs = c('cba', 'DT', 'heatmaply', 'igraph', 'markdown', 'RColorBrewer',
'shiny', 'shinycssloaders', 'shinydashboard', 'shinyjs', 'shinythemes', 'shinyTree', 'shinyWidgets',
'stringr', 'tidyr', 'visNetwork')
# Check for missing packages:
new.pkgs <- pkgs[!(pkgs %in% installed.packages()[,"Package"])]
# Install the missing packages:
if (length(new.pkgs)) install.packages(new.pkgs, dependencies=TRUE)
# Download and run the app from github:
library(shiny)
runGitHub("epimap_vis", "cboix")
In addition, we have paper's analysis code on github at https://github.com/cboix/epimap_analysis
Paper: Boix et. al (2021) - Regulatory genomic circuitry of human disease loci by integrative epigenomics