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Heliotrope is a web-based clinically-oriented platform for translational bioinformatics. Clinical genomics studies involve information about patients, samples, and genomic features, typically managed by very different systems. This tool enables clinical and laboratory information to be managed and integrated with a semi-automatically curated knowledge base of clinically relevant information about genomic variants. The tool provides a framework for knowledge integration in translational bioinformatics, so study protocols are flexible, and new knowledge sources can be added without schema changes or code integration.

Requirements

• MongoDB - tested with version 2.6.3
• Node - tested with version 0.10.28
• Java runtime - tested with version 1.7.0_60

Easy installation

The quickest and easiest way of setting up a Heliotrope installation is to use Vagrant with VirtualBox. Simply install both, then use the following commands:

$ git clone git@github.com:oicr-ibc/heliotrope-vagrant-demo.git
$ cd heliotrope-vagrant-demo
$ vagrant up

This will start a new virtual machine running Heliotrope. It takes about 15 minutes to load everything for a first installation. Then you can connect to Heliotrope using a regular web browser at: https://localhost:8443/. The visuals use SVG, and therefore won't run on old versions of Internet Explorer.