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Events/GCC2013/Program/Includes

This page is not intended to be viewed directly. Rather it contains several snippets of wiki markup that are then included on the GCC2013 Program page inside tables. Doing it this way makes the wiki markup much, much easier.


Session1

9:20

Keynote: Computational Reproducibility is Crucial for Scientific Software Platforms

10:10

Accepted Talks

10:10

 Reproducible research and the 90/10 rule: Improving the ratio of light script to dark script matter in your Galaxy

10:30

 Reproducible and automated processing in high-throughput NGS facilities

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Session2

11:15

Accepted Talks

11:15

A Galaxy of learning: Bioinformatics tutorials based on Galaxy
Simon Gladman, Life Sciences Computation Centre, Victorian Life Sciences Computation Initiative

11:35

The Genomic HyperBrowser: a Galaxy-based web server for analysis of genomic tracks
Eivind Hovig and Geir Kjetil Sandve, University of Oslo

11:55

modENCODE Galaxy: Uniform ChIP-Seq Processing Tools for modENCODE and ENCODE Data         
Quang M Trinh, Ontario Institute for Cancer Research

12:15

The Galaxy SlipStream Appliance: Galaxy Made Easy
Anushka Brownley
Product Manager and Scientific Consultant, BioTeam
Gold Sponsor Presentation

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Session3

13:30

Accepted Talks

13:30

Single-cell genomics pipeline: from raw reads to phylogenomics using Galaxy
Lionel Guy, Department for Cell and Molecular Biology and SciLifeLab, Uppsala University

13:50

 A layered genotyping-by-sequencing pipeline using Galaxy

14:05

The Linked2Safety's Galaxy Based Data Analysis Space
Aristos Aristodimou, Department of Computer Science, University of Cyprus

14:20

Galaxy as an Integration and Workflow Platform for a Cloud Enabled Bio-medical Image Analysis and Image Processing Toolkit
Piotr Szul, CSIRO Commonwealth Scientific and Industrial Research Organisation

14:35

Representation and statistical analysis of 3D chromatin data in a Galaxy framework
Jonas Paulsen, Oslo University Hospital, Section for Medical Informatics, The Norwegian Radium Hospital

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Session4

15:50

Ion Torrent Semiconductor Sequencing Update
Mike Lelivelt, Ph.D.
Director of Bioinformatics and Software Products, Ion Torrent, part of Life Technologies
Platinum Sponsor Presentation

 Ion Torrent

16:30

Lightning Talks, Session 1

Medilaxy: A Galaxy Platform For Medical Image Analysis
Marco Carnini, Johannes Gutenberg University

Establishing a genomics analysis workbench
Enis Afgan, Victorian Life Sciences Computation Initiative, University of Melbourne

LiSIs: a Galaxy-based platform for Life Science Informatics Research
Christos Kannas, University of Cyprus

Software Carpentry - Helping scientists build better software since 1998
Lex Nederbragt, University of Oslo

Galaxy Integration into an External Information System
Alban Lermine, Institut Curie

Implementing Next Generation Web Server in Galaxy
Wai Yi Leung, Leiden University Medical Centre

Galaxy Scratchbook: How to view, customize, and layout multiple visualizations
Aysam Guerler, Emory University

Unraveling the code of our Galaxy
Pieter Lukasse

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Session5

9:10

 State of the Galaxy
Anton Nekrutenko and James Taylor, Galaxy Project

9:40

Accepted Talks

9:40

 BioBlend - automating bioinformatics with Galaxy and CloudMan
Clare Sloggett, Victorian Life Sciences Computation Initiative (VLSCI), University of Melbourne

10:00

 Extension of Galaxy to Utilize Web Services and A Semantic Suggestion Engine
Jessica C. Kissinger, University of Georgia

10:20

 GTrack 1.0: Unified data format providing customizable representation and high-speed analysis performance within Galaxy
Sveinung Gundersen, Department of Tumor Biology, The Norwegian Radium Hospital

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Session6

11:10

Accepted Talks

11:10

 Globus Genomics - An Integrated End to End Sequencing Analysis Platform Powered by Globus Online and Galaxy
Ravi Madduri, Argonne National Laboratory

11:30

 Galaxy-P: Beyond Proteomics
John Chilton, University of Minnesota Supercomputing Institute

11:50

DevOps Ignition to reach Galaxy continuous integration
Olivier Inizan and Mikael Loaec, Unité de Recherches en Génomique-Info, INRA

12:10

The Clinical Galaxy: A validated platform initiative
Sanjay Joshi
Chief Technical Officer (CTO), Life Sciences, EMC Isilon
Gold Sponsor Presentation

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Session7

13:30

Accepted Talks

13:30

Enhancing the Galaxy Tool Shed
Greg Von Kuster, Penn State University

13:50

How to Create Your Own Web-based, Interactive Visualizations for Galaxy
Carl Eberhard, Emory University

14:05

 Managing Galaxy's Built-in Data
Daniel Blankenberg, Penn State University

14:20

Contributing to Galaxy
Dannon Baker, Emory University

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Session8

15:50

Lightning Talks, Session 2

How to set up a Galaxy service you can count upon
Vladimir Daric, CNRS, Université Paris Sud

GenesCloud : Bioinformatics cloud computing infrastructure
Victoria Dominguez, ABgenomica

Andromeda: NBIC Galaxy at Surfsara's HPC cloud
Leon Mei, NBIC

Workflow4Metabo
Gildas Le Corguille, UPMC-CNRS

GLM for testing differential expression and GSEA in Galaxy
Ross Lazarus, Baker IDI Heart and Diabetes Institute

Analysis of DNA methylation data using galaxy
Pavan Videm, University of Freiburg

Galaxy on an elastic HPC cluster at AWS
Srinivas Maddhi, Iowa Institute Of Human Genetics

Running Galaxy workflows using the CLC Main Workbench
Marc Logghe, Ablynx NV

Proteogenomics with Galaxy
Ira Cooke,  LSCC / La Trobe

"Lightweight" HPC Client: Leveraging Galaxy Tool configs

ChemicalToolBoX: Cheminformatics inside the Galaxy
Björn Grüning,  University of Freiburg

17:20

Closing

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ESCAPE PUB

Escape Pub
Bar @ Escape

The Escape Pub, in the Ole Johan Dahls House (the conference venue), has been reserved on Sunday and Monday evening until 21:00.  It's normally a student pub, and has what are quite possibly the least expensive beverages in Oslo.  If you are looking for a place to relax (or a particularly convivial evening Birds of a Feather session), then please do drop in.   END_INCLUDE