WebApollo (prounounced weeba-poyo) 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:
- a web-browser-based version of Apollo built on top of JBrowse
- full support for two-way client-server exchange of genome annotations (DAS2)
- 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.
This work is supported by an NIH grant (Lewis R01 GM080203).
- Suzanna Lewis (PI, LBNL)
- Ian Holmes (PI, UC Berkeley)
- Chris Elsik (PI, University of Missouri)
- Rob Buels (UC Berkeley)
- Chris Childers (University of Missouri)
- Gregg Helt (LBNL)
- Ed Lee (LBNL)
- Monica Munoz-Torres
- Justin Reese (University of Missouri)
- Mitch Skinner (Emeritus - developed first version of JBrowse)
- Nomi Harris (LBNL) (Emeritus)
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|
|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 |
|WebApollo Tutorial for the 2012 GMOD Summer School||August 25-29, 2012||WebApollo Tutorial||Ed Lee|
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.