tripal_jbrowse_api

A Tripal module that exposes Chado as a JBrowse-compatible REST API

Based on https://github.com/erasche/chado-jbrowse-connector

Quickstart Guide

1. Install this module on your Tripal site
2. Visit admin/people/permissions on your site and give the Use JBrowse API permission to all roles (including anonymous users).
3. Go to http://jbrowse.org/code/latest-release/?data=http://yourtripalsite.com/api/jbrowse to see all the tracks that were automatically created from your Chado features table!

Customizing Permissions

Access to the API can be limited to authenticated users by removing the Use JBrowse API permission from the 'anonymous user' role on the admin/people/permissions page. Please note that if you do this external JBrowse instances not hosted on the same server as your Tripal site will not be able access the data.

Adding custom tracks

The tripal_downloads module provides a content type for downloadable files. Individual downloads can optionally be exposed as JBrowse tracks through this API.

License

GPLv3. The queries in includes/tripal_jbrowse_api.queries.inc that are derived from the chado-jbrowse-connector project, which is licensed under AGPLv3, are included here from a GPLv3 licensed version of that project provided to me by Eric Rasche with the approval of the other contributors.