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Difference between revisions of "WebApollo"

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== Presentations ==
 
== Presentations ==
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{| border="1" cellspacing="0" cellpadding="10"
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<table border="1">
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! Conference or Meeting
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<tr>
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! Date
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<th>Date</th>
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! Title
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<th>Event</th>
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! Speaker
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<th>Title</th>
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! Abstract and/or slides
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<th>Speaker/Authors</th>
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|-
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<th>Abstract/Slides</th>
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| [http://www.intlpag.org/2013/ PAG 2013 (International Plant & Animal Genome XXI)]
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</tr>
−
| January 12-16, 2013
+
−
| WebApollo: A Web-based Sequence Annotation Editor for Distributed Community Annotation
+
−
| Gregg Helt, Ed Lee, Robert Buels, Christopher Childers, Justin Reese, Mónica Muñoz-Torres, Christine Elsik, Ian Holmes, and Suzanna Lewis
+
−
|[[Media:WebApollo PAG 2013 Poster.pptx | Poster]]
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−
|-
+
−
| [[WebApollo Tutorial 2012|WebApollo Tutorial for the 2012 GMOD Summer School]]
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−
| August 25-29, 2012
+
−
| WebApollo Tutorial
+
−
| Ed Lee
+
−
|
+
−
|-
+
−
| [http://www.open-bio.org/wiki/BOSC_2011 Bioinformatics Open Source Conference (BOSC) 2011]
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−
| July 15, 2011
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−
| ''WebApollo: A web-based sequence annotation editor for community annotation''
+
−
| Nomi Harris
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−
| [[Media:BOSC2011-abstract.pdf | Abstract]]<br>[http://www.slideshare.net/bosc2011/webapollo-bosc2011 Slides]
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−
|-
+
−
| [http://academy.nescent.org/wiki/Next-gen_sequencing 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.'' <br>Workshop: ''Manual Curation of Automated Gene Models.''
+
−
| Mónica Muñoz-Torres
+
−
|[[Media:NESCent-NGS-Biocuration-MMT.pdf | T: Slides]] [http://academy.nescent.org/wg/academy/images/7/76/Moni1.mp3 T: Audio] <br>[[Media:NGS_workshop_annotation_AP-&-MMT.pdf | W: Slides]] [http://academy.nescent.org/wg/academy/images/e/e5/Moni2.mp3 W: Audio]
+
−
|-
+
−
| Workshop on Manual Annotation, Purdue University
+
−
| August 26, 2011
+
−
| ''Manual Curation of Automated Gene Models''
+
−
| Mónica Muñoz-Torres
+
−
|[[Media:NGS_workshop_annotation_AP-&-MMT.pdf | Slides]]
+
−
|-
+
−
| [http://www.entsoc.org/entomology2011 Entomological Society of America]
+
−
| November 13-16, 2011
+
−
| WebApollo demo/tutorial
+
−
| Gregg Helt, Ed Lee, Monica Muñoz-Torres
+
−
| [[Media:WebApollo_at_ESA_Flyer.pdf | Flyer for tutorial]]
+
−
|-
+
−
| [http://www.intl-pag.org/ PAG (Plant and Animal Genome) conference]
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−
| January 14-18, 2012
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−
|
+
−
|
+
−
|
+
−
|-
+
−
| [http://pir.georgetown.edu/biocuration2012/ Biocuration 2012]
+
−
| April 2-4, 2012
+
−
| ''WebApollo: A Web-Based Sequence Annotation Editor for Distributed Community Annotation''
+
−
| Gregg Helt
+
−
| [[Media:biocuration-abstract-v1-shortened.pdf | Biocuration abstract]]
+
−
|-
+
−
| [http://www.k-state.edu/agc/symp2012/ i5K Community Workshop & Arthropod Genomics Symposium]
+
−
| May 30 - June 2, 2012
+
−
| WebApollo Demo
+
−
| Gregg Helt, Ed Lee, Monica Muñoz-Torres
+
−
|[[Media:WebApollo_Demo_i5K-AGS_2012.pdf | Tutorial]] <br> [[Media:WebApollo_Poster_Arthropod_Genomics_June2012.pptx | Poster]]
+
  
−
|}
+
<tr>
−
<br>
+
<td>January 12-16, 2013</td>
 +
<td>[http://www.intlpag.org/2013/ PAG 2013 (International Plant & Animal Genome XXI)]</td>
 +
<td>WebApollo: A Web-based Sequence Annotation Editor for Distributed Community Annotation</td>
 +
<td>Gregg Helt, Ed Lee, Robert Buels, Christopher Childers, Justin Reese, Mónica Muñoz-Torres, Christine Elsik, Ian Holmes, and Suzanna Lewis</td>
 +
<td>[[Media:WebApollo PAG 2013 Poster.pptx | Poster]]</td>
 +
</tr>
 +
 
 +
<tr>
 +
  <td>August 25-29, 2012</td>
 +
<td> [[WebApollo Tutorial 2012 | WebApollo Tutorial for the 2012 GMOD Summer School]]</td>
 +
<td> WebApollo Tutorial</td>
 +
<td> Ed Lee</td>
 +
<td></td>
 +
</tr>
 +
 
 +
<tr>
 +
  <td>May 30 - June 2, 2012
 +
</td><td> [http://www.k-state.edu/agc/symp2012/ i5K Community Workshop & Arthropod Genomics Symposium]
 +
</td><td> WebApollo Demo
 +
</td><td> Gregg Helt, Ed Lee, Monica Muñoz-Torres
 +
</td><td>[[Media:WebApollo_Demo_i5K-AGS_2012.pdf | Tutorial]] <br> [[Media:WebApollo_Poster_Arthropod_Genomics_June2012.pptx | Poster]]
 +
</td>
 +
</tr>
 +
 
 +
<tr>
 +
  <td> April 2-4, 2012</td>
 +
<td> [http://pir.georgetown.edu/biocuration2012/ Biocuration 2012]
 +
</td>
 +
<td> ''WebApollo: A Web-Based Sequence Annotation Editor for Distributed Community Annotation''
 +
</td><td> Gregg Helt
 +
</td><td> [[Media:biocuration-abstract-v1-shortened.pdf | Biocuration abstract]]
 +
  </td>
 +
</tr>
 +
 
 +
<tr>
 +
  <td> January 14-18, 2012
 +
</td><td> [http://www.intl-pag.org/ PAG (Plant and Animal Genome) conference]
 +
</td>
 +
<td>
 +
</td><td>
 +
</td><
 +
<td></td>
 +
</tr>
 +
 
 +
<tr>
 +
  <td> November 13-16, 2011
 +
</td><td> [http://www.entsoc.org/entomology2011 Entomological Society of America]
 +
</td><td> WebApollo demo/tutorial
 +
</td><td> Gregg Helt, Ed Lee, Monica Muñoz-Torres
 +
</td><td> [[Media:WebApollo_at_ESA_Flyer.pdf | Flyer for tutorial]]
 +
  </td>
 +
</tr>
 +
 
 +
<tr>
 +
<td> August 26, 2011 </td>
 +
<td> Workshop on Manual Annotation, Purdue University
 +
  </td>
 +
<td> ''Manual Curation of Automated Gene Models''
 +
</td><td> Mónica Muñoz-Torres
 +
</td><td>[[Media:NGS_workshop_annotation_AP-&-MMT.pdf | Slides]]
 +
  </td>
 +
</tr>
 +
 
 +
<tr>
 +
<td> August 16-20, 2011 </td>
 +
<td> [http://academy.nescent.org/wiki/Next-gen_sequencing Next-gen sequencing: Data acquisition, comparative genomics, design and analysis for population genetics, systematics and development (Course, National Evolutionary Synthesis Center (NESCent))]
 +
</td>
 +
<td> Talk: ''Biocuration, Best Practices.'' <br>Workshop: ''Manual Curation of Automated Gene Models.''
 +
</td><td> Mónica Muñoz-Torres
 +
</td><td>[[Media:NESCent-NGS-Biocuration-MMT.pdf | T: Slides]] [http://academy.nescent.org/wg/academy/images/7/76/Moni1.mp3 T: Audio] <br>[[Media:NGS_workshop_annotation_AP-&-MMT.pdf | W: Slides]] [http://academy.nescent.org/wg/academy/images/e/e5/Moni2.mp3 W: Audio]</td>
 +
</tr>
 +
 
 +
<tr>
 +
<td>July 15, 2011</td>
 +
<td>[http://www.open-bio.org/wiki/BOSC_2011 Bioinformatics Open Source Conference (BOSC) 2011]</td>
 +
<td>'WebApollo: A web-based sequence annotation editor for community annotation'</td>
 +
<td>Nomi Harris</td>
 +
<td>[[Media:BOSC2011-abstract.pdf | Abstract]]<br>[http://www.slideshare.net/bosc2011/webapollo-bosc2011 Slides]</td>
 +
</tr>
 +
<tr>
 +
</tr>
 +
</table>
  
 
== Project Meetings ==
 
== Project Meetings ==

Revision as of 22:29, 16 January 2013

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
  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.

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

Downloads and Documentation

Project members

Presentations

<
Date Event Title Speaker/Authors Abstract/Slides
January 12-16, 2013 PAG 2013 (International Plant & Animal Genome XXI) WebApollo: A Web-based Sequence Annotation Editor for Distributed Community Annotation Gregg Helt, Ed Lee, Robert Buels, Christopher Childers, Justin Reese, Mónica Muñoz-Torres, Christine Elsik, Ian Holmes, and Suzanna Lewis Poster
August 25-29, 2012 WebApollo Tutorial for the 2012 GMOD Summer School WebApollo Tutorial Ed Lee
May 30 - June 2, 2012 i5K Community Workshop & Arthropod Genomics Symposium WebApollo Demo Gregg Helt, Ed Lee, Monica Muñoz-Torres Tutorial
Poster
April 2-4, 2012 Biocuration 2012 WebApollo: A Web-Based Sequence Annotation Editor for Distributed Community Annotation Gregg Helt Biocuration abstract
January 14-18, 2012 PAG (Plant and Animal Genome) conference
November 13-16, 2011 Entomological Society of America WebApollo demo/tutorial Gregg Helt, Ed Lee, Monica Muñoz-Torres Flyer for tutorial
August 26, 2011 Workshop on Manual Annotation, Purdue University Manual Curation of Automated Gene Models Mónica Muñoz-Torres Slides
August 16-20, 2011 Next-gen sequencing: Data acquisition, comparative genomics, design and analysis for population genetics, systematics and development (Course, National Evolutionary Synthesis Center (NESCent)) Talk: Biocuration, Best Practices.
Workshop: Manual Curation of Automated Gene Models. 		Mónica Muñoz-Torres T: Slides T: Audio
W: Slides W: Audio
July 15, 2011 Bioinformatics Open Source Conference (BOSC) 2011 'WebApollo: A web-based sequence annotation editor for community annotation' Nomi Harris Abstract
Slides

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.

Source Code and APIs

Retrieved from "http://gmod.org/mediawiki/index.php?title=WebApollo&oldid=22827"