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GCC2019 has ended
The 2019 Galaxy Community Conference (GCC2019) was held in Freiburg, Germany, 1-8 July.  There was one day of training, three days of mixed meeting and training, and then two to four days of CollaborationFest.  The meeting featured joint & parallel sessions; invited, accepted, and lightning talks; poster and demo sessions; birds-of-a-feather meetups; social events; and training sessions every day.

Thanks to everyone who helped make GCC2019 a success!
France [clear filter]
Tuesday, July 2
 

12:15 CEST

BoF: Remote computation with Pulsar
This BoF is for everyone working with or interested to work with a Pulsar installation. We will discuss our current projects and possible opportunities for collaboration.

Interested?
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Submit your proposal now.  See the list of already scheduled BoFs for inspiration...

Moderators
avatar for Gianmauro Cuccuru

Gianmauro Cuccuru

University of Freiburg


Tuesday July 2, 2019 12:15 - 13:20 CEST
France

13:20 CEST

EWAS data analysis for population epigenetics integrated into Galaxy - Epigenetics
Epigenetic aberrations which involve DNA modifications give researchers an interest to identify novel non-genetic factors responsible for complex human phenotypes such as height, weight, and disease. The goal of this session is to analyse differentially methylated regions in treatment resistant melanomas using Galaxy

Prerequisites

TIaaS URL for this training: https://usegalaxy.eu/join-training/gcc-ewas

Speakers
avatar for Krzysztof Poterlowicz

Krzysztof Poterlowicz

University of Bradford


Tuesday July 2, 2019 13:20 - 14:50 CEST
France

15:00 CEST

Demo 03 A: Analysing and organising large-scale metabolome annotation studies with Django, ISA and Galaxy
Thomas N. Lawson, Martin R. Jones, Mark R. Viant and Ralf J. M. Weber

Speakers
TN

Thomas N. Lawson

Post doc, University of Birmingham



Tuesday July 2, 2019 15:00 - 15:20 CEST
France

15:25 CEST

Demo 04 A: GalaxyCloudRunner: Streamlined Cloud Bursting for Galaxy
Nuwan Goonasekera, Alexandru Mahmoud and Enis Afgan

Speakers
avatar for Nuwan Goonasekera

Nuwan Goonasekera

University of Melbourne



Tuesday July 2, 2019 15:25 - 15:45 CEST
France
 
Wednesday, July 3
 

12:15 CEST

BoF: Multi-omics
Discussion about Galaxy tools and workflows in area of proteomics, proteogenomics and metaproteomics.

Interested?
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Interested in proposing another idea for a BoF?
Submit your proposal now.  See the list of already scheduled BoFs for inspiration...

Moderators
avatar for Timothy J. Griffin

Timothy J. Griffin

Professor, University of Minnesota
avatar for Pratik Jagtap

Pratik Jagtap

Research Assistant Professor, University of Minnesota
Metaproteomics . DIA . Proteogenomics


Wednesday July 3, 2019 12:15 - 13:20 CEST
France

13:20 CEST

The RNA workbench, best practices for RNA and high-throughput sequencing bioinformatics in Galaxy - RNA and transcriptomics
Learn best practices for RNA and high-throughput sequencing bioinformatics in Galaxy using tools available in the RNA Workbench:

Prerequisites

TIaaS URL for this training: https://usegalaxy.eu/join-training/gcc-rnaworkbench

Speakers
avatar for Florian Eggenhofer

Florian Eggenhofer

Postdoc, University of Freiburg (ALU)
University of Freiburg (ALU)


Wednesday July 3, 2019 13:20 - 14:50 CEST
France

15:50 CEST

Visualisation development in Galaxy
In this age of high-throughput analysis and big data, visualisations have become an invaluable resource for the presentation and exploration of these often high-dimensional, complex, and large datasets.

While many tools in Galaxy produce static visual outputs (graphs, trees, etc), often some more interactivity is desired to aid in the exploration of these datasets. To support this need, Galaxy offers a range of visualisation options, such as Trackster for browsing genomic data and Charts for the interactive visualisation of tabular data and other datatypes.

In this workshop participants will learn how to develop such visualisations in Galaxy, more specifically:
  • Develop a module within the Charts visualisation plugin using Javascript
  • Develop a simple visualisation plugin from scratch

Prerequisites
  • Basic understanding of Galaxy from a developer point of view
  • Some familiarity with Javascript
  • A wi-fi enabled laptop with a modern web browser. Google Chrome, Firefox and Safari will work best

Speakers
avatar for Anup Kumar

Anup Kumar

PhD candidate, University of Freiburg
avatar for Aysam Guerler

Aysam Guerler

Galaxy Project, Johns Hopkins University
Johns Hopkins University
avatar for Jeremy Goecks

Jeremy Goecks

Associate Professor of Biomedical Engineering and Computational Biology, Oregon Health & Science University


Wednesday July 3, 2019 15:50 - 17:20 CEST
France
 
Thursday, July 4
 

12:15 CEST

Galaxy containers BoF
Interested in containerizing Galaxy for deployment, maintenance, and portability? We'll talk about use cases and approaches to software containerization that are suitable for Galaxy. We are likely to cover topics such as container architecture, extensibility, interoperability, and scalability.

Interested?
Sign in / Create an account, and add yourself as a participant.

Interested in proposing another idea for a BoF?
Submit your proposal now.  See the list of already scheduled BoFs for inspiration...

Moderators
avatar for Enis Afgan

Enis Afgan

Research Scientist, Johns Hopkins University (JHU)
A long-standing member of the Galaxy community, spanning roles from system deployment to leadership.
avatar for Marius van den Beek

Marius van den Beek

Penn State University
avatar for Nuwan Goonasekera

Nuwan Goonasekera

University of Melbourne
avatar for Bjorn Gruning

Bjorn Gruning

University of Freiburg
avatar for Pablo Moreno

Pablo Moreno

EMBL-EBI European Bioinformatics Institute


Thursday July 4, 2019 12:15 - 13:20 CEST
France

13:20 CEST

Metabolomics data analysis I
Metabolomics data analysis is a complex, multistep process, which is constantly evolving with the development of new analytical technologies, mathematical methods, and bioinformatics tools and databases. The Workflow4Metabolomics (W4M) project aims to develop full LC/MS, GC/MS, FIA/MS and NMR pipelines using Galaxy framework for data analysis including preprocessing, normalization, quality control, statistical analysis and annotation steps.

This workshop will introduce W4M and how to use it for metabolomics data analysis.
This is part I of a two part training.

Prerequisites
  • Introduction to Galaxy or equivalent experience
  • A wi-fi enabled laptop with a modern web browser. Google Chrome, Firefox and Safari will work best


TIaaS URL for this training: https://usegalaxy.eu/join-training/gcc-metabolomics

Speakers
RW

Ralf Weber

University of Birmingham
avatar for Gildas Le Corguillé

Gildas Le Corguillé

CNRS-SU - Station Biologique de Roscoff - ABiMS
TN

Thomas N. Lawson

Post doc, University of Birmingham


Thursday July 4, 2019 13:20 - 14:50 CEST
France

15:00 CEST

Demo 12 C: Visual Refinement of Genome Annotations with Apollo in a Community Environment
Nathan Dunn, Deepak Unni, Colin Diesh, Helena Rasche, Anthony Bretaudeau, Nomi Harris and Ian Holmes

Speakers
avatar for Nathan Dunn

Nathan Dunn

Software Developer, Lawrence Berkeley National Lab



Thursday July 4, 2019 15:00 - 15:20 CEST
France

15:25 CEST

Demo 13 C: The IRIDA Platform for Microbial Genomics
Aaron Petkau, Thomas Matthews, Franklin Bristow, Josh Adam, Jeff Thiessen, Sukhdeep Sidhu, Peter Kruczkiewicz, Emma Griffiths, Damion Dooley, Dan Fornika, Geoff Winsor, Amogelang Raphenya, Morag Graham, Eduardo Taboada, Andrew McArthur, Robert Beiko, William Hsiao, Fiona Brinkman and Gary Van Domselaar

Speakers
avatar for Aaron Petkau

Aaron Petkau

Bioinformatician, Public Health Agency of Canada



Thursday July 4, 2019 15:25 - 15:45 CEST
France

15:50 CEST

Metabolomics data analysis II
Metabolomics data analysis is a complex, multistep process, which is constantly evolving with the development of new analytical technologies, mathematical methods, and bioinformatics tools and databases. The Workflow4Metabolomics (W4M) project aims to develop full LC/MS, GC/MS, FIA/MS and NMR pipelines using Galaxy framework for data analysis including preprocessing, normalization, quality control, statistical analysis and annotation steps.

This workshop will introduce W4M and how to use it for metabolomics data analysis.

This is part II of a two part training.

Prerequisites
  • Introduction to Galaxy or equivalent experience
  • A wi-fi enabled laptop with a modern web browser. Google Chrome, Firefox and Safari will work best

TIaaS URL for this training: https://usegalaxy.eu/join-training/gcc-metabolomics

Speakers
RW

Ralf Weber

University of Birmingham
TN

Thomas N. Lawson

Post doc, University of Birmingham
avatar for Gildas Le Corguillé

Gildas Le Corguillé

CNRS-SU - Station Biologique de Roscoff - ABiMS


Thursday July 4, 2019 15:50 - 17:20 CEST
France
 
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