RegulomeExplorer

TCGA Regulome Explorer

Regulome Explorer is a tool for exploring and understanding genomic association analyses. It is an HTML5 web application that uses multiple visualizations to provide users with a means to dive into relationships between complex, heterogenous data features.

The previous version of RE is deployed at explorer.cancerregulome.org/all_pairs/ and explorer.cancerregulome.org/re/

This is a new implementation of RE that does not share codebase with the previous version. If you are looking for the source code for the previous version of RE, go to www.googlecode.com/p/regulome-explorer/

This new version was never completed and has been deprecated. The current version is copied from its location on www.googlecode.com/p/regulome-explorer/ to cancerregulome/RegulomeExplorer

Build Instructions

Requirements: NodeJS > 0.10.1 git

Clone the repo to a local directory and change to that directory

git clone http://github.com/cancerregulome/RegulomeExplorer /local/git/re
cd  /local/git/re

Install grunt-cli and bower for global access

npm install -g grunt-cli bower

Install the remaining development packages

npm install

Install the client application dependencies:

bower install

Build the web application:

grunt build

Set up the development environment

Edit Gruntfile.js. In the JSON object passed to grunt.initConfig() find the connect.proxies object. Point the local development server to proxy to the external mongo databases :

proxies: [
   {
                    context : '/svc',  //identify request to proxy via URL
                    host : 'server1',  
                    port : 8000, 
                    // https : false,
                    changeOrigin : false,
                    // rewrite: {
                    //     '^/mongo' : ''  //remove /mongo from proxied request
                    // }
                }
	]

the rewrite attribute can be used to modify the proxy call before passing it to the remote server.