Help Desk Update Dave Clements Galaxy Project Emory

Help Desk Update Dave Clements Galaxy Project Emory University clements@galaxyproject. org March 2011 GMOD Meeting 5 -6 March 2011

Inputs and Outputs • Lunch will be here – I think in this room. • Dinner – Mt Fuji, Brightleaf Square, 7: 30 pm tonight. – Unofficial – Headcount • Coffee/Tea • Bathrooms • Twitter: #gmod 11

Software Membership Requirements • Codified in Feb 2010, following Jan 2010 meeting • Revisions discussed and adopted Fall 2010 • Version 2 Requirements: – – – – Meets a common need Useful over time Configurable and Extensible Open source license for all users Interoperable with existing GMOD components Commitment of support Support mailing list that is publicly archived Publicly accessible code repository http: //gmod. org/wiki/GMOD_Membership

GMOD. org and GMOD on the Web • New and improved GMOD News as part of move to OICR • GMOD Project Statistics Page • GMOD Promotion Page • Unified email archive @ Nabble

GMOD Europe 2010 Report • 4 events, 4 days, 60 people • GMOD Meeting – 19 Talks – Open Microscopy Environment, Inter. Mine, Bio. Pivot, Cp. G Island STR Annotator Plugins, GMOD RPC API, CRAWL, DAS, Cosmic GBrowse, Project Sustainability, … • Bio. Mart and Inter. Mine workshops • Two Satellite Meetings – Post Reference Genome Tools – Community Annotation http: //gmod. org/wiki/News/GMOD_Europe_2010_Report

GMOD Evo Hackathon Report • • • 5 days, 31 people, 8 subroups GMatchbox GBrowse_syn 2 JBrowse_syn Phylo. Box GMatchbox-JBrowse-Phylo. Box Integration Natural Diversity and Phenotypes in Chado Galaxy + Hy. Phy Bio. Perl

Satellites • • Birds of a Feather / SIGs Monday, All day, @ NESCent Can still sign up Topics: – GMOD Evo Hackathon Folowup - Duke Leto – Customizing and Extending JBrowse - Mitch Skinner – GMOD in the Sequencing Center - Chris Hemmerich & Dave Clements – Your idea here … http: //gmod. org/wiki/Satellite_Meetings_-_GMOD_Americas_2011

Courses • 2011: 5 th school, 4 rd year – Next week @ NESCent, North Carolina, US – 55 applications for 25 slots – Inter. Mine and SOBA new this year. – Plus Apollo, Chado, Galaxy, GBrowse_syn, GFF 3, JBrowse, MAKER, and Tripal – Tuition $265, < $55/day – Course sessions will become online tutorials http: //gmod. org/wiki/GMOD_Courses

Upcoming Events of Note • Galaxy Community Conference – May, Lunteren, The Netherlands • Arthropod Genomics Symposium – June, Kansas City, Missouri, US • Workshop on Comparative Genomics – July, Fort Collins, Colorado, US • Fall GMOD Meeting – October, Toronto, Canada • Plant and Animal Genome – January, San Diego, California, US • Biocuration 2012 / Bio. Creative / GMOD – April, Washington DC, United States http: //gmod. org/wiki/Calendar

(Help Desk) Grant Funded • Enhancing the GMOD Suite of Genome Annotation and Visualization Tools – JBrowse, GBrowse JBrowse, Help Desk • Help Desk – JBrowse, GBrowse JBrowse, NGS data, transcriptomics, developmental atlases, population genomic and natural diversity data, workflow and pipeline tools for processing large data sets, and software interoperability – Continue with documentation, user support, gmod. org, training, courses, outreach, annual survey

GMOD Help Desk: Now Hiring http: //gmod. org/wiki/News/GMOD_Helpdesk_Position_Open

Acknowledgements Scott Cain Carson Holt Brian Osborne Ed Lee Danielle Wilson Stephen Ficklin Mitch Skinner Ian Holmes Phillips Lab Gos Micklem Shelley Lawson Jason Swedlow Barry Moore Alex Kalderimis Eric Stone Steve Taylor Richard Baldock Brian O’Connor Denis Tagu Sheldon Mc. Kay Lincoln Stein Jim Hu Peter Van Buren Daniel Renfro Todd Vision Nathan Liles Maryann Martone Bill Gelbart Brenley Mc. Intosh Chris Hemmerich Cresko Lab James Taylor LBCC Adv. Design Ben Faga Joshua Orvis Heng Li Simon Mc. Gowan Junjun Zhang Hilmar Lapp Candace Brown Jon Auman Dan Blankenberg Dave Matthews Steve Heller John Aikman Robert Buels Richard Smith Nicole Washington Alexie Papanicolaou Josh Goodman Randy Campbell Suzi Lewis Mark Yandell Sue Brown Matt Bellgard Don Gilbert …

Thanks For everything Dave Clements Galaxy Project Emory University clements@galaxyproject. org http: //gmod. org/wiki/GMOD_Help_Desk

Mailing List Archive(s): GMOD @ Nabble Unified search - no matter where list is hosted All active lists SF. net search < good http: //gmod. org/wiki/GMOD_Mailing_Lists http: //gmod. 827538. n 3. nabble. com/

Promotion • Why? – Increased visibility Increased adoption More projects contributing back – Increased adoption & development funding • How? – – – – Cite GMOD, GMOD Components Powered by GMOD icons Speakers at your event Graphics & slides for your presentations, posters Presentation and event promotion Brochures (GMOD project, events) Bling! http: //gmod. org/wiki/GMOD_Promotion

GMOD Logo Program Logos by John Aikman's Spring 2010 Advanced Design class @ Linn-Benton Community College, Albany, Oregon, United States http: //gmod. org/wiki/Spring_2010_Logo_Program