WebApollo

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ApolloLogo.png

WebApollo is a project that aims to provide similar functionality to Apollo in a client-server web-based environment.

Our overall goal is to develop a lightweight Web 2.0 infrastructure that will offer easy-to-use tools for collaborative genome annotation that allows users to view, create, and edit genomic annotations in a graphical environment. This includes the design and implementation of:

  1. a web-browser-based version of Apollo built on top of JBrowse
  2. full support for two-way client-server exchange of genome annotations (DAS2)
  3. an annotation tracking system designed to support collaborative genome research projects

The WebApollo project is a collaboration between Suzanna Lewis's group at LBNL (the Berkeley Bioinformatics Open-source Projects group, or BBOP), the JBrowse project in Ian Holmes' group at Berkeley, and Chris Elsik's group at University of Missouri.

Public Demo

Server Installation Instructions

Setting up a server for your organism's genome data [WebApollo release for setup]

This work is supported by an NIH grant (Lewis R01 GM080203).

Project members

Talks and Demos

Conference or Meeting Date Title Speaker Abstract and/or slides
Binformatics Open Source Conference (BOSC) 2011 July 15, 2011 WebApollo: A web-based sequence annotation editor for community annotation Nomi Harris Abstract
Slides
Next-gen sequencing: Data acquisition, comparative genomics, design and analysis for population genetics, systematics and development (Course, National Evolutionary Synthesis Center (NESCent)) August 16-20, 2011 Talk: Biocuration, Best Practices.
Workshop: Manual Curation of Automated Gene Models.
Mónica Muñoz-Torres T: Slides T: Audio
W: Slides W: Audio
Workshop on Manual Annotation, Purdue University August 26, 2011 Manual Curation of Automated Gene Models Mónica Muñoz-Torres Slides
Entomological Society of America November 13-16, 2011 WebApollo demo/tutorial Gregg Helt, Ed Lee, Monica Muñoz-Torres Flyer for tutorial
PAG (Plant and Animal Genome) conference January 14-18, 2012
Biocuration 2012 April 2-4, 2012 WebApollo: A Web-Based Sequence Annotation Editor for Distributed Community Annotation Gregg Helt Biocuration abstract
i5K Community Workshop & Arthropod Genomics Symposium May 30 - June 2, 2012 WebApollo Demo Gregg Helt, Ed Lee, Monica Muñoz-Torres Tutorial
Poster
WebApollo Tutorial for the 2012 GMOD Summer School August 25-29, 2012 WebApollo Tutorial Ed Lee


Project Meetings

Project meetings normally take place on Mondays at 1:00pm California time (PDT). On the last Monday of the month we usually meet at 9am PDT.

Links