The Galaxy Community Conference featured two full days of sessions and workshops. For participants who are brand new to Galaxy there was also a 2 hour Introduction to Galaxy session the night before the meeting.
Slides and vidoes of talks are now available on the Galaxy Wiki.
Tuesday 24 May 2011
16:00-19:15 Shuttle runs between Lunteren train station and conference centre (see Logistics)
17:00-18:30 Dinner available at conference hotel, sign up when registering
12:00 Conference centre hotel checkin opens
18:30-22:00 Conference checkin desk open
19:00-21:00 Introduction to Galaxy Session
Need an introduction to Galaxy? This is it (and it is SOLD OUT).
21:00-01:00 The bar is open
Introduce yourself!
Wednesday 25 May 2011
07:00-09:00 Breakfast for those staying in the hotel the night before.
08:00-09:15 Shuttle runs between Lunteren train station and conference centre
08:30-10:00 Conference checkin desk open
09:30-12:35 Session 1
09:30 Welcome
Anton Nekrutenko, Penn State University
09:40 New Data Sources, New Tools
Daniel Blankenberg, Penn State University
10:10 Galaxy Tool Shed
Greg Von Kuster, Penn State University
10:40 Genome Assembly and Annotation within Galaxy
Konrad Paskiewicz, University of Exeter
11:05 Coffee break
11:20 Galaxy in Plant Pathology, Not Everything is NGS Data
Peter Cock, James Hutton Institute
11:45 Integrated Small Variant Detection Using Galaxy
Erik Garrison, Boston College
12:10 Efficient Tool Deployment to the Galaxy Cloud: An RNA-Seq Workflow Case Study
Sebastian J. Schultheiss, FML of the Max Planck Society, Tübingen
12:35-13:35 Lunch (included with registration)
13:35-18:15 Session 2
13:35 Galaxy Trackster and Visual Analytics
Jeremy Goecks, Emory University
14:05 Galaxy Deployment and API
Nate Coraor, Penn State University, and Dannon Baker, Emory University
14:35 Pathogenomics Analysis and Visualization
Freddy de Bree, Central Veterinary Institute at Wageningen UR
15:00 National Collaborative Platform for Genomics and Proteomics Data Analysis
Hailiang Mei, NBIC
15:25 Coffee Break
15:40 Using Galaxy to Provide Tools for the Analysis of Diverse Local Datasets
Hans-Rudolf Hotz, Friedrich Miescher Institute for Biomedical Research
16:05 Deploying Galaxy for Use with High-Throughput Screening Experiments
Grainne Kerr, German Cancer Research Center and Heidelberg University
16:30 A Galactic Experience and Extending Galaxy Sample Tracking
Jelle Scholtalbers, TRON gGmbH
16:55 Movement of Large Datasets via Integration of GridFTP and GlobusOnline with
a Production Galaxy Setup at the University of Chicago
Neil Bahroos and Alex Rodriguez, University of Chicago
17:20 Galaxy for High Throughput Sequencing
Kirt Haden, Illumina
17:45 JAX: Exploring the Galaxy — Our Experiences Deploying and Using Galaxy
Glen Beane, Jackson Laboratory
18:10 Day 1 Closing
Anton Nekrutenko, Penn State University
18:30-20:00 Conference Dinner (included with registration)
20:00-01:00 NBIC Sponsored Open Bar — free soft drinks, beer, and wine
Welcome
Barend Mons, NBIC
20:30,22:00 Shuttle runs from conference centre to Lunteren train station
Thursday 26 May 2011
07:00-09:00 Breakfast for those staying in the hotel the night before.
08:00-09:15 Shuttle runs between Lunteren train station and conference centre
09:00-12:25 Session 3
09:00 Day 2 Welcome
James Taylor, Emory University
09:10 CloudMan: Galaxy on the Cloud
Enis Afgan, Emory University
09:40 The Genomic Hyperbrowser
Geir Kjetil Sandve, University of Oslo
10:05 Customized Galaxy with Applications as Web Services and on the Grid for Open
Source Drug Discovery
Anshu Bhardwaj, Open Source Drug Discovery Consortium, Council of Scientific
and Industrial Research; and Chintalapati Janaki, Center for Development of Advanced
Computing (C-DAC); India
10:30 Coffee Break
11:00 Enacting Taverna Workflows Through Galaxy
Konstantinos Karasavvas, NBIC
11:25 Pushing Data to Galaxy
Ido M. Tamir, Institute of Molecular Pathology, Vienna
12:50 Using Galaxy for the Analysis of NGS-derived Pathogen Genomes in Clinical Microbiology
Anthony Underwood, Health Protection Agency, UK
12:15-13:25 Lunch (included with registration)
13:25-17:00 Session 4
13:25 Lightning Talks
BCBB Pipeline
Roman Valls Guimerà, Science for Life Laboratory, Stockholm
RunBlast
Mike Cariaso, KeyGene
Free Omixon Tool to Up/Download Large Genomic Data files to Amazon Web Services
Attila Berces, Omixon
NBIC Galaxy Hackathon Report
Freek de Bruijn, NBIC
InterMine
Alex Kalderimis, University of Cambridge
SGE Integration
Paul Smith, Illumina
iPlant Storage Plans
Matt Vaughan, Texas Advanced Computing Center
Importing Clinical Annotations into Galaxy
Alain Colleta, inSilico, ULB
Assertion Based Testing
Jim Johnson, University of Minnesota
Galaxy, GridFTP, Condor, and Globus Online
Ravi Maduri, University of Chicago
Space Junk
Nate Coraor, Penn State University
14:50 Closing Remarks
James Taylor, Emory University
15:00 Coffee Break
15:15 Breakout Sessions
Visualization and Visual Analytics
Jeremy Goecks
Sample Tracking and Instrument Integration
Greg von Kuster, Anton Nekrutenko
Thinking Big: CloudMan, Grid, and Scalability
Enis Afgan, Nate Coraor, James Taylor
Workflows and API
Kanwei Li, Dannon Baker
Complex Tools and Datasources: Parameters, Datatypes and Metadata
Dan Blankenberg
Building a Data Infrastructure: Genomic Data Management
Kelly Vincent, Jennifer Hillman-Jackson
17:00 2011 Galaxy Community Conference ends
17:00-18:15 Shuttle runs between conference centre and Lunteren station
17:45-19:15 Dinner available at conference hotel, sign up when registering
Friday 27 May 2011
07:00-09:00 Breakfast for those staying in the hotel the night before.
07:30-09:15 Shuttle runs between conference centre and Lunteren train station
10:00 Check-out
Questions? Ask the organizers.
The 2011 Galaxy Community Conference is generously sponsored by the US National Science Foundation and the Netherlands Bioinformatics Centre (NBIC). Galaxy is developed by Galaxy Team and funded by NSF, NHGRI, Penn State, Emory University, Penn State Institute for CyberScience and the Huck Institutes of the Life Sciences. Galaxy is free for all.
