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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!
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A. Training
All
Admin / Dev
Diverse Communities
Epigenetics
Introduction / General
Metagenomics / Assembly
Proteomics / Metabolomics
Transciptomics / Genome Variation
B. Talks: Admin / Dev
All
Session 2
Session 7
Session 8
B. Talks: Epigenetics
All
Session 6
B. Talks: General
B. Talks: Outside the Genome & Community
All
Session 13
Session 2
Session 6
B. Talks: Proteomics / Metabolomics
All
Session 13
Session 14
B. Talks: Transcriptomics / Genomics
All
Session 7
Session 8
B. Talks: Variation / Metagenomics / Assembly
All
Session 14
C. Posters / Demos / Sponsors
All
Demos
Posters
Sponsors
D. Break / Social / Networking / Meal
All
BoFs
Break
Demos
Meal
Sponsors
E. Help
F. CollaborationFest: Core
G. CollaborationFest: Encore
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Chris Barnett
University of Cape Town
Lecturer
South Africa
Monday
, July 1
10:00 CEST
Introduction to Galaxy Administration I
Greece
Martin Čech • Enis Afgan • Simon Gladman • Marius van den Beek • John Chilton • Nate Coraor • Helena Rasche
12:00 CEST
Lunch
Konzerthaus
13:00 CEST
Introduction to Galaxy Administration II
Greece
Enis Afgan • Simon Gladman • Martin Čech • Marius van den Beek • John Chilton • Nate Coraor • Helena Rasche
15:00 CEST
Break
Konzerthaus
15:30 CEST
Analyzing Large / Complex Experimental Designs with Galaxy
Germany
Daniel Blankenberg • Marius van den Beek • Mo Heydarian • Jennifer Hillman-Jackson
Introduction to Galaxy Administration III
Greece
Enis Afgan • Simon Gladman • Martin Čech • John Chilton • Nate Coraor • Helena Rasche
18:00 CEST
The Computational Chemistry BoF
Offsite
Bjorn Gruning • Chris Barnett • Simon Bray
Tuesday
, July 2
08:59 CEST
Session 1: Opening Plenary
Greece
Bjorn Gruning
09:00 CEST
Welcome
Greece
Anika Erxleben • Bjorn Gruning
09:40 CEST
Galaxy Australia – inside the national vision of a data commons
Greece
Gareth Price
10:20 CEST
An Update on Galaxy Workflows: More Accessible, Expressive, Robust, and Scalable
Greece
John Chilton • Marius van den Beek
11:00 CEST
Galaxy Computational Chemistry
Germany
Chris Barnett
11:20 CEST
Climate Analysis with Galaxy
Germany
Anne Fouilloux
11:34 CEST
How – And How not – to manage successful local Galaxies deployments
Greece
Philip Mabon
11:40 CEST
Galaxy Image Analysis: Web-based microscopy image analysis and cellular phenotyping
Germany
Thomas Wollmann
11:54 CEST
Building a Pulsar Network across Europe
Greece
Gianmauro Cuccuru
13:20 CEST
How to create a Galaxy Tool
Greece
John Chilton • Nicola Soranzo
15:00 CEST
Demo 01 A: Galaxy Computational Chemistry
Spain
Chris Barnett
15:50 CEST
Machine Learning with Galaxy - Predict age from RNA-seq dataset
Germany
Alireza Khanteymoori • Jeremy Goecks • Anup Kumar
Scripting Galaxy through BioBlend
Greece
Marius van den Beek • Nicola Soranzo
17:20 CEST
Group Picture
Konzerthaus
17:30 CEST
Using Galaxy for Creation and Execution of Text Mining Workflows in the OpenMinTeD platform
Germany
Dimitrios Galanis
17:50 CEST
To Better Benefit from Shared Tasks in Biomedical Text Mining
Germany
Mouhamadou Ba
17:57 CEST
The LAPPS Grid/Galaxy Platform for Mining Scientific Publications
Germany
Alexandru Mahmoud
19:00 CEST
The Galaxy Training Network BoF!
Offsite
Saskia Hiltemann • Bérénice Batut • Helena Rasche
Wednesday
, July 3
09:00 CEST
Containerizing Galaxy server as a Singularity application on HPC clusters for GenAP
Greece
David Morais
09:40 CEST
A Minimal Docker Image for Galaxy
Greece
That Other Person
09:54 CEST
gxadmin: usegalaxy.* administration wisdom
Greece
Helena Rasche
11:00 CEST
Working Effectively with Remote Data in Galaxy - A Progress Report
Greece
John Chilton
11:07 CEST
Testing and Visualizing the State of Galaxy Tools and Workflows
Greece
Martin Čech
11:34 CEST
RealTimeTools: Integrating, Customizing, and Accessing UI-based Tools in Galaxy
Greece
Daniel Blankenberg
11:54 CEST
Creating a Universe of Galaxies: The UseGalaxy.* Project
Greece
Nate Coraor
12:15 CEST
BoF: Galactic Visualisation!
Italy
Saskia Hiltemann • Helena Rasche • Anil S. Thanki
13:20 CEST
Galaxy Code Architecture
Greece
John Chilton • Nate Coraor
14:50 CEST
Poster 11 B: LC-MS/MS tool and interactive visualizations integration on Galaxy Workflow4Metabolomics infrastructure
Konzerthaus
Romain Dallet
Poster 26 B: RealTimeTools: Integrating, Customizing, and Accessing UI-based Tools in Galaxy
Konzerthaus
Daniel Blankenberg
Poster 47 B: Climate Analysis with Galaxy
Konzerthaus
Anne Fouilloux
Poster 53 B: UseGalaxy.eu: Community, Training, Infrastructure, and Users
Konzerthaus
Helena Rasche
15:00 CEST
Demo 05 B: Combat-tb Workbench, A Customizable Platform For Variant Discovery And Annotation, Phylogeny Construction And Variant Prioritisation
Belgium
Ziphozakhe Mashologu
Demo 15 B: CWL in Galaxy, 2019-06 snapshot
Italy
Michael R. Crusoe • John Chilton • Hervé Ménager
15:50 CEST
Visualisation development in Galaxy
France
Anup Kumar • Aysam Guerler • Jeremy Goecks
17:30 CEST
Invited Talk: Galaxy Community Update
Greece
Anton Nekrutenko • James Taylor
18:00 CEST
Tool Prediction in Galaxy Workflows using Deep Learning
Greece
Anup Kumar
18:07 CEST
Street Science Community: make science tangible & accessible by bringing it to the “street” with open science workshops
Greece
Teresa Müller
19:30 CEST
Conference Dinner
Offsite
Thursday
, July 4
08:59 CEST
Session 13:Outside the Genome & Community Track
Germany
Bérénice Batut
09:00 CEST
Invited Talk: Data visualisation by citizen science participants: the case of birds and bats monitoring schemes and Galaxy-E
Germany
Yves Bas • Romain Lorrillière
09:20 CEST
Interactive Galaxy Visualizations for Multi-omics Research
Greece
Ray Sajulga
09:30 CEST
Galaxy-Bricks a Tool for Data Literacy and Scientific Approach Education in the Context of Citizen Science
Germany
Simon Bénateau
09:47 CEST
Galaxy Wrapper for MaxQuant
Greece
Damian Glätzer
09:54 CEST
Application of Halogen Bonding in Molecular and Drug Design Facilitated by a Galaxy Webserver
Greece
Frank M. Boeckler
10:04 CEST
The ChemicalToolBox - Computational Chemistry in Galaxy
Germany
Simon Bray
10:11 CEST
Improved Reference Data Management in Galaxy: Towards a Plant Data Analysis Platform
Germany
Ignacio Eguinoa
10:18 CEST
Use Galaxy, Right Now!
Germany
Helena Rasche • Dave Clements
10:25 CEST
Galaxy Publication Library
Germany
Dave Clements
10:59 CEST
Session 14: Proteomics & Metabolomics
Greece
Pratik Jagtap
11:00 CEST
Analysing and organising large-scale metabolome annotation studies with Django, ISA and Galaxy
Greece
Thomas N. Lawson
11:20 CEST
Combat-tb Workbench, A Customizable Platform For Variant Discovery And Annotation, Phylogeny Construction And Variant Prioritisation
Germany
Ziphozakhe Mashologu
11:40 CEST
Workflow4Metabolomics: an international computing infrastructure for Metabolomics
Greece
Mélanie Petera • Romain Dallet • Gildas Le Corguillé
12:15 CEST
Arts & Crafts
Czechia
Saskia Hiltemann • Helena Rasche
13:20 CEST
CVMFS and Pulsar
Greece
Simon Gladman • Nate Coraor • Gianmauro Cuccuru • Helena Rasche
Proteomic data analysis with Galaxy
Belgium
Matthias Fahrner • Maren Stillger • Melanie Föll
14:50 CEST
Poster 36 C: EDAM: the ontology of bioinformatics operations, types of data, topics, and data formats (2019 update)
Konzerthaus
Matúš Kalas
Poster 48 C: The ChemicalToolBox - Computational Chemistry in Galaxy
Konzerthaus
Simon Bray
15:50 CEST
Handling integrated biological data using Python, Jupyter, and InterMine
Germany
Kevin Reierskog • Yo Yehudi
MALDI imaging of peptides data analysis
Belgium
Matthias Fahrner • Maren Stillger • Melanie Föll
17:29 CEST
Session 18: Closing Plenary
Greece
Andrew Lonie
17:30 CEST
Invited Talk: UseGalaxy: Elucidating chromatin biology of mouse cardiomyocytes
Greece
Stephan Nothjunge
18:00 CEST
Galaxy and Training: 2019 updates from the Galaxy Training Network
Greece
Bérénice Batut
18:20 CEST
Closing
Greece
Dave Clements • Bjorn Gruning • Anika Erxleben
19:00 CEST
The Freiburg City Tour BoF!
FILLING
Offsite
Friday
, July 5
09:00 CEST
CollaborationFest: Core
Konzerthaus
Saturday
, July 6
09:00 CEST
CollaborationFest: Core
Konzerthaus
Sunday
, July 7
09:00 CEST
CollaborationFest: Encore
University of Freiburg Compute Center
Monday
, July 8
09:00 CEST
CollaborationFest: Encore
University of Freiburg Compute Center
Timezone
GCC2019
Europe/Berlin
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A. Training
All
Admin / Dev
Diverse Communities
Epigenetics
Introduction / General
Metagenomics / Assembly
Proteomics / Metabolomics
Transciptomics / Genome Variation
B. Talks: Admin / Dev
All
Session 2
Session 7
Session 8
B. Talks: Epigenetics
All
Session 6
B. Talks: General
B. Talks: Outside the Genome & Community
All
Session 13
Session 2
Session 6
B. Talks: Proteomics / Metabolomics
All
Session 13
Session 14
B. Talks: Transcriptomics / Genomics
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Session 7
Session 8
B. Talks: Variation / Metagenomics / Assembly
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Session 14
C. Posters / Demos / Sponsors
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D. Break / Social / Networking / Meal
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BoFs
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E. Help
F. CollaborationFest: Core
G. CollaborationFest: Encore
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