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Events/Archive

Listing of Galaxy events from previous years. See the main Events page for current and recent events.

2015

Galaxy @ Plant and Animal Genome (PAG 2015) Revolutionizing Next-Generation Sequencing: Tools and Technologies   January 22 Galaxy Baltimore Meetup   Analyse bioinformatique de séquences sous Galaxy   19 February GalaxyAdmins Web Meetup   February 18 Galaxy Baltimore Meetup   Democratizing the ability to analyze genomic data Variant Detection Using Galaxy Ruđer Bošković Institute (RBI) Développement et intégration d’applications sous Galaxy Galaxy Meetups @ Penn State   Workshop: Variant detection using Galaxy Fourth GUGGO meeting   RNA-Seq and ChIP-Seq Analysis with Galaxy   16 April GalaxyAdmins Web Meetup   Initiation à la plateforme web GALAXY   QFAB Workshops Bio-IT World 2015 Galaxy Workshop Tokyo 2015 High-throughput Biology: From Sequence to Networks 2015 QFAB Workshop: Variant detection using Galaxy Getting Bioinformatics Done with Galaxy   Galaxy Meetups @ Penn State   MIPRO 2015   Penn State University College of Medicine 63rd ASMS Conference on Mass Spectrometry and Allied Topics Cycle "Bioinformatique par la pratique" 2015 Workshop: RNA-Seq analysis using Galaxy   18 June GalaxyAdmins Web Meetup   Short Course in Medical Genetics and Genetic Pathology 2015 Initiation à la plateforme web GALAXY      2015 Galaxy Community Conference (GCC2015)    BOSC 2015  ISMB ECCB 2015 20 August GalaxyAdmins Web Meetup   Scaling Up Bioinformatics Workflows with Dynamic Job Expansion: A Case Study Using Galaxy and Makeflow @ IEEE eScience 2015   RNA-seq data analysis NGS Course Initiation à la plateforme web GALAXY   Using Galaxy for Analysis of High Throughput Sequence Data   Western Association of Core Directors (WACD) Annual Meeting Traitement des données métabolomiques sous Galaxy   TRAPLINE: An Integrated Galaxy Pipeline for RNAseq Data Processing, Evaluation and Prediction Next generation sequencing (NGS) data analysis Analyse avancée de séquences October Galaxy Admins Meetup Workshop: Extended RNA-Seq analysis 6 Galaxy related posters @ Genome Informatics 2015   3 Workshop: Galaxy for the Analysis of Very Large Biomedical Data; Common Workflow Language on Galaxy, Part of Portable Bioinformatics; Single-Cell Sequencing: Analysis & Visualization of Copy Number Variations    Advanced Variant Calling with Galaxy Analyse de données RNA-seq sous l’environnement Galaxy Galaxy Day 2015 Advanced RNA-Seq DGE with Galaxy Galaxy Training from Bioplatforms Australia and Intersect Galaxy Session at III Bioinformatics and Computational Biology Symposium 

Date

Topic/Event

Venue/Location

Contact

Links

December 18

Galaxy Session

Europe
III Bioinformatics and Computational Biology Symposium, Barcelona, Spain

Email <scb@iec.cat>

December 3

RNA-Seq Analysis Using Galaxy

Australia
University of Newcastle, Newcastle, NSW, Australia

Training offered by GTN Member
Mark Crowe, Katherine Champ <kchamp@bioplatforms.com>

December 4

Variant Detection Using Galaxy

November 30 - December 1

IUC Contribution Fest - Metagenomics Tools and Workflows

Around the world
Online

IUC, John Chilton

November 25

Adapting Galaxy bioinformatics to outbreak-associated Clostridium difficile

Biomedical Discovery and Commercialization Symposium 2015

Zachary Lin

Abstract

November 25

Advanced RNA-Seq DGE with Galaxy

Australia
VLSCI, Carlton, VIC, Australia

Training offered by GTN Member
VLSCI

November 18

Hackathon Galaxy 2015

Europe
Institut Pasteur, Paris, France

Email <gtgalaxy@groupes.france-bioinformatique.fr>

November 19

Galaxy Day 2015

Presentations

November 17-18

Analyse de données RNA-seq sous l’environnement Galaxy

Europe
PRABI, Lyon, France

Training offered by GTN Member
Email <contact@fc3bio.fr>

November 15-16

Analyse de données RNA-seq sous l’environnement Galaxy

Europe
PRABI, Lyon, France

Training offered by GTN Member
Email <contact@fc3bio.fr>

November 12-13

Engaging Biologists with Big Data Using Interactive Genome Annotation

BD2K All-Hands Grantee Meeting, Bethesda, Maryland, United States

Jeremy Goecks

Poster

November 12

BioTeam & UC Davis Webinar: Introduction to Genomics Data Analysis with Galaxy

Around the world
Webinar - Open to all

Email <tom@bioteam.net>

November 5

RNA-Seq Differential Gene Expression Analysis using Galaxy

Australia
VLSCI, Carlton, VIC, Australia

Training offered by GTN Member
VLSCI

Advanced Variant Calling with Galaxy

Training offered by GTN Member
VLSCI

November 3

Galaxy for the Analysis of Very Large Biomedical Data Workshop

North America
Festival of Genomics California, San Mateo, California, United States

Training offered by GTN Member
Dan Blankenberg, John Chilton

Common Workflow Language on Galaxy

John Chilton

Single-Cell Sequencing: Analysis & Visualization of Copy Number Variations Workshop

Robert Aboukhalil, Tyler Garvin

October 28 - November 3

Computational & Comparative Genomics Course

North America
Cold Spring Harbor Laboratory, New York, United States

Training offered by GTN Member
James Taylor

October 28-31

Hidden RNA codes revealed from the plant in vivo RNA structurome

North America
Genome Informatics 2015, Cold Spring Harbor Laboratory, New York, United States

Yin Tang

Poster 55: From the ground to the cloud in just minutes—Building a customized Galaxy analysis server using only a web browser

Dan Blankenberg

Poster 59: Galaxy Tool World Progression—Happier developers, happier users

Martin Cech

Poster

Poster 63: Building more expressive Galaxy workflows

John Chilton

Poster 113: Large scale correlation of epigenomics data

Pierre-Étienne Jacques

Poster 151: Automated transfer of workflows from Galaxy to Yabi and command line tools

David Molik

Poster

Poster 179: The Galaxy HiC browser—An interactive multi-dimensional genome topology browser and data repository

Mike Sauria

Poster 195: Galaxy Methylation Toolkit as a Galaxy flavor

Nitesh Turaga

Poster

October 29

Introduction to Proteomics with Galaxy

Australia
VLSCI, Carlton, VIC, Australia

Training offered by GTN Member
VLSCI

October 28-29

Workshop: Extended RNA-Seq analysis

Australia
QFAB, University of Queensland, St Lucia, Australia

Training offered by GTN Member
Mark Crowe

October 20

Variant calling with Galaxy (beginners)

Australia
VLSCI, Carlton, VIC, Australia

Training offered by GTN Member
VLSCI

October 15

October Galaxy Admins Meetup

Around the world
Online

David Kovalic, Hans-Rudolf Hotz, Dave Clements

Video, Slides

October 14

Using GenAP and Galaxy for Genomics analysis

North America
Sherbrooke, Québec, Canada

Frédéric Robidoux <frobidoux@genomequebec.com>

October 12-14

Analyse avancée de séquences

Europe
Bordeaux Bioinformatics Center, University Bordeaux Segalen, France

Email <cfe.contact@cnrs.fr>

October 10-11

The Microbial Genomics Virtual Laboratory

Australia
ABACBS 2015 Conference, Sydney, NSW, Australia

Simon Gladman

October 9

Introduction to Integrative Analysis with GenomeSpace Workshop

North America
ASHG 2015, Baltimore, Maryland, United States

GenomeSpace <gs-help@genomespace.org>

October 8

Introduction to Galaxy

Australia
VLSCI, Carlton, VIC, Australia

Training offered by GTN Member
VLSCI

October 1

Proteogenomics and Metaproteomics using the GalaxyP Platform

Asia
CSIR-Institute of Genomics & Integrative Biology (IGIB), New Dehli, India

Pratik Jagtap

September 30

Proteogenomics and Metaproteomics using the GalaxyP Platform

Asia
Jawaharlal Nehru University, New Dehli, India

Pratik Jagtap

September 27-30

TRAPLINE: An Integrated Galaxy Pipeline for RNAseq Data Processing, Evaluation and Prediction

Europe
German Conference on Bioinformatics (GCB), Dortmund, Germany

Markus Wolfien, also see TRAPLINE Manual

September 28-30

Next generation sequencing (NGS) data analysis

Europe
University Medical Centre Groningen, The Netherlands

Training offered by GTN Member
BioSB Education <education@biosb.nl>

September 28

Mutational Analysis with Random DNA Identifiers (MARDI), a High-Fidelity NGS Approach That Simultaneously Identifies Gene Marker Mutations from Heterogeneous Mutant Cell Populations

North America
Environmental Mutagenesis and Genomics Society (EMGS), New Orleans, Louisiana, United States

Javier Revollo

September 21-25

Traitement des données métabolomiques sous Galaxy

Europe
Station Biologique de Roscoff, France

Training offered by GTN Member
W4M Course Organisers <w4mcourse2015.organisation@sb-roscoff.fr>

September 24

Proteogenomics and Metaproteomics using the GalaxyP Platform

Asia
IICT-CSIR, Hyderabad, India

Pratik Jagtap

September 23

Proteogenomics and Metaproteomics using the GalaxyP Platform

Asia
CSIR-CCMB, Hyderabad, India

Pratik Jagtap

September 21-23

JHU-DaSH: Data Science Hackathon

North America
Baltimore, Maryland, United States

Email <jhuDaSH@jhu.edu>

September 21

Proteogenomics and Metaproteomics using the GalaxyP Platform

Asia
IIT Bombay, Bombay, India

Pratik Jagtap

September 17-18

Remote Hackathon for Tools and Dataset Collections

Around the world
Online

IUC <galaxy-iuc@lists.galaxyproject.org>

September 17-18

Utilizing the Galaxy Analysis Framework at Core Facilities

North America
Western Association of Core Directors (WACD) Annual Meeting, Portland, Oregon, United States

Dave Clements

Slides, Slides with notes

September 14-18

Using Galaxy for Analysis of High Throughput Sequence Data

North America
UC Davis Bioinformatics Core, Davis, California, United States

Training offered by GTN Member
UC Davis Bioinformatics <bioinformatics.core@ucdavis.edu>

September 15

Towards accessible, reproducible, and transparent research in the life sciences: an innovative open source VRE approach in Western France

North America
HUBbub 2015, Indianapolis, Indiana, United States

Yvan Le Bras

September 9

Initiation à la plateforme web GALAXY

Europe
Galaxy User Group Grand Ouest (GUGGO), Rennes, France

Training offered by GTN Member
Cyril Monjeaud, Yvan Le Bras

September 7-9

RNA-seq data analysis NGS Course

Europe
Leiden University Medical Center, The Netherlands

Training offered by GTN Member
BioSB Education <education@biosb.nl>

September 2

Scaling Up Bioinformatics Workflows with Dynamic Job Expansion: A Case Study Using Galaxy and Makeflow

Europe
IEEE eScience 2015, Munich, Germany

Nicholas Hazekamp

Paper

August 20

Genomic data management at Canada's National Microbiology Laboratory with IRIDA and Galaxy

Around the world
August 2015 GalaxyAdmins Web Meetup, Online

Hans-Rudolf Hotz, Aaron Petkau

Slides, Video

August 10

Big Data Services: Globus Online, Galaxy, GridFTP

North America
Joint Statistical Meetings (JSM2015), Seattle, Washington, United States

Ravi Madduri

July 23

Pitagora-Galaxy Meetup

Asia
National Institute of Informatics, Tokyo, Japan

Ryota Yamanaka, et al.

Summary

July 10-14

BOSC 2015 & ISMB/ECCB 2015

10+ Galaxy related talks, posters, panel discussions, ...

Europe
Dublin, Ireland

See presenters

Slides

July 6-10

An Introduction to Galaxy with the Genomics Virtual Lab: workshop

Australia
Winter School in Mathematical and Computational Biology, University of Queensland, Brisbane, Queensland, Australia

Training offered by GTN Member
Mark Crowe

July 6-9

Workflow4Metabolomics: A collaborative research infrastructure for computational metabolomics

Europe
JOBIM 2015, Clermont-Ferrand, France

Mélanie Pétéra

FROGS: Find Rapidly OTU with Galaxy Solution

Lucas AUER

Eoulsan 2: Facilitating expansion to new NGS tools and execution platforms

Sandrine PERRIN

Poster-026 (#120) Application du système GenFam à la réponse au stress des plantes : intégration de l'identification d'éléments cis spécifiques

Jonathan LORENZO

Poster

Poster-027 (#122): !RiboTools: A Galaxy toolbox for qualitative Ribosome Profiling analysis

Rachel LEGENDRE

Poster

Poster-063 (#99) Decoupling RNAseq data from genomic context to help understanding the data

Bernd JAGLA

Poster-083 (#97) FROGS: Find Rapidly OTU with Galaxy Solution

Lucas AUER

Poster-097 (#24) Integration of RSAT tools in Galaxy with SOAP web services

Jocelyn BRAYET

Poster

Poster-102 (#41): Workflows for comparative protein analysis using PipeAlign in Galaxy

Arnaud KRESS

Poster

Poster-117 (#156) Le Cloud Académique IFB pour les Sciences du Vivant

Christophe BLANCHET

Poster-142 (#169): A French Galaxy Tool Shed to federate the national infrastructures and offering quality assessed tools

Loraine Brillet-Guéguen

July 4-8

2015 Galaxy Community Conference (GCC2015)

Europe
The Sainsbury Lab, Norwich, United Kingdom

GCC2015 Organisers <gcc2015-org@lists.galaxyproject.org>

July 4-5

Data Hackathon Organisers <gcc2015-data-org@lists.galaxyproject.org>

Coding Hackathon Organisers <gcc2015-hack-org@lists.galaxyproject.org>

July 5

Training offered by GTN Member
GCC2015 Organisers <gcc2015-org@lists.galaxyproject.org>

July 6

July 6-8

GCC2015 Organisers <gcc2015-org@lists.galaxyproject.org>

June 25

Initiation à l'analyse de données de type RAD par le pipeline STACKS sous Galaxy

Teach/Trainers#Galaxy_User_Group_Grand_Ouest_.28GUGGO.29 Bioinformatics
Lille, France

Training offered by GTN Member
Yvan Le Bras, Anthony Bretaudeau, Cyril Monjeaud

June 22

Massively parallel sequence data analysis workshop (introduction to Galaxy framework for variant calling)

Australia
Part of Short Course in Medical Genetics and Genetic Pathology 2015, Sydney, Australia

Training offered by GTN Member
Ross Lazarus, Andrew Lonie

June 22

Initiation à la plateforme web GALAXY

Teach/Trainers#Galaxy_User_Group_Grand_Ouest_.28GUGGO.29 Bioinformatics
Galaxy User Group Grand Ouest (GUGGO), Angers, France

Training offered by GTN Member
Yvan Le Bras, Cyril Monjeaud

June 22

Introduction à l'analyse de données RNAseq sous Galaxy

Teach/Trainers#Galaxy_User_Group_Grand_Ouest_.28GUGGO.29 Bioinformatics
Galaxy User Group Grand Ouest (GUGGO), Angers, France

Training offered by GTN Member
Yvan Le Bras, Cyril Monjeaud

June 18

GenAP: Computing platform for life sciences research

North America
HPCS 2015, Montreal, Quebec, Canada

Pierre-Etienne Jacques, Carol Gauthier

June 18

Galactic Engineering: Experiences deploying Galaxy and developing tools within the Bioinformatics Core Facility at the University of Manchester

Around the world
June 2015 GalaxyAdmins Web Meetup, Online

Peter Briggs, John Chilton, Hans-Rudolf Hotz

Slides

June 16

Australian Galaxy Developers Workshop

University of Melbourne, Melbourne, Australia

Simon Gladman, Clare Sloggett, Nuwan Goonasekera

Links

June 11-12

Introduction to Galaxy: RNA-seq and ChIP-seq data analysis Workshop

Europe
University of Cambridge, Cambridge, United Kingdom

Training offered by GTN Member
Dave Clements

Slides

June 10-11

Informatics on High-throughput Sequencing Data

North America
Toronto, Ontario, Canada

Training offered by GTN Member
Francis Ouellette

Slides, Video

June 8-9

Introduction to Galaxy Workshop

Workshop is full, but there is a waiting list

Europe
University of Glasgow, Glasgow, United Kingdom

Training offered by GTN Member
Dave Clements

Slides

June 6-9

WS02: NGS Variant Analysis with Galaxy

Europe
ESHG 2015, Glasgow, United Kingdom

Training offered by GTN Member
Dave Clements

Slides

June 4

Analysis Reproducibility

North America
Reproducibility of Data Collection and Analysis: Modern Technologies in Genome Technology: Potentials and Pitfalls, NIH, Bethesda, Maryland, United States

James Taylor

Slides, Video (Chapter 8)

May 31 - June 4

63rd ASMS Conference on Mass Spectrometry and Allied Topics

North America
St. Louis, Missouri, United States

Speaker List

June 2

Initiation à l’utilisation de Galaxy

Europe
Jouy-en-Josas, France

Veronique Martin <veronique.martin@jouy.inra.fr>, Sophie Schbath <sophie.schbath@jouy.inra.fr>

June 3

Analyse primaire de données issues de séquenceurs nouvelle génération sous Galaxy

June 4

Traitement bioinformatique des données RNA-Seq sous Galaxy

June 3

Workshop: RNA-Seq analysis using Galaxy

Australia
QFAB, University of Queensland, St Lucia, Australia

Training offered by GTN Member
Mark Crowe

May 25-29

Cloudflow – A Framework for MapReduce Pipeline Development in Biomedical Research

Europe
MIPRO, Opatija, Croatia

Lucas Forer

Building and provisioning computational cluster environments on academic and commercial clouds

Enis Afgan

Paper

May 22, 29

Introduction to the analysis of NGS data

Registration is closed

Europe
Leuven, Belgium

Janick Mathys

May 26-28

Workshop on the Application of Next Generation Sequencing to Repetitive DNA Analysis in Plants

Registration is closed

Europe
České Budějovice, Czech Republic

Jiri Macas <macas@umbr.cas.cz>

May 27

Introduction to Galaxy for Next Generation Sequencing Analysis

North America
Penn State College of Medicine, Hershey, Pennsylvania, United States

Training offered by GTN Member
Anton Nekrutenko, Jill Curry <jcurry@hmc.psu.edu>

May 22

Using GenAP and Galaxy for Genomics analysis

North America
Sherbrooke, Québec, Canada

Frédéric Robidoux <frobidoux@genomequebec.com>

May 15

RNA-Seq Galaxy Workshop

North America
Penn State University, State College, Pennsylvania, United States

Training offered by GTN Member
Martin Cech, Anton Nekrutenko

Slides

May 13

Workshop: Variant detection using Galaxy

Australia
QFAB, University of Queensland, St Lucia, Australia

Training offered by GTN Member
Mark Crowe

May 13

Getting Bioinformatics Done with Galaxy

North America
BGI @ UC Davis workshop series, Davis, California, United States

Training offered by GTN Member
UC Davis Bioinformatics <bioinformatics.core@ucdavis.edu>

May 12

Initiation à l’utilisation de Galaxy

Europe
Jouy-en-Josas, France

Veronique Martin <veronique.martin@jouy.inra.fr>, Sophie Schbath <sophie.schbath@jouy.inra.fr>

May 13

Analyse primaire de données issues de séquenceurs nouvelle génération sous Galaxy

May 7

Intégration d’outils dans la plateforme web Galaxy

Teach/Trainers#Galaxy_User_Group_Grand_Ouest_.28GUGGO.29 Bioinformatics
Galaxy User Group Grand Ouest (GUGGO), Rennes, France

Cyril Monjeaud, Yvan Le Bras

April 27 - May 3

High-throughput Biology: From Sequence to Networks 2015

North America
New York City, New York, United States

Training offered by GTN Member
Francis Ouellette

Slides, Video

April 28

Galaxy Workshop Tokyo 2015

Asia
RCAST, The University of Tokyo, Japan

Ryota Yamanaka

Slides

April 28

http://biosb.nl/events/eps-postgraduate-course-genome-assembly-2nd-edition/Genome Assembly, EPS Postgraduate course

Europe
Wageningen University, The Netherlands

BioSB Education <education@biosb.nl>

April 21

Workshop: Large Scale NGS Analysis Using Globus Genomics

North America
Bio-IT World 2015, Boston, Massachusetts, United States

Paul Davé, Ravi Madduri, Alex Rodriguez, Dinanath Sulakhe

April 22

Large-Scale NGS Analysis Using Globus Genomics: Challenges and User Success Stories

Ravi Madduri

Extending Galaxy with External Microbiome Databases

Bob Brown

April 23

Visualization Tools for the Refinery Platform

Nils Gehlenborg

Slides

April 18-21

Towards a Cloud-ready Cancer Genomics Analysis Pipeline

North America
Canadian Human and Statistical Genetics Meeting, Vancouver, British Columbia, Canada

Bruno Grande

April 20-21

Workshop: Extended RNA-Seq analysis

QFAB, University of Queensland, St Lucia, Australia

Training offered by GTN Member
Mark Crowe

April 17-18

Building data analysis ecosystem in life sciences with Galaxy

The 3rd Annual LA Conference on Computational Biology & Bioinformatics, Louisiana State University, Baton Rouge, Louisiana, United States

Anton Nekrutenko

Slides

April 16

GalaxyAdmins April 2015 Meetup

Online

Hans-Rudolf Hotz, Dave Clements, Carrie Ganote, Aysam Guerler

Slides, video

April 14-15

Swift Parallel Scripting for Science, Engineering and Data Analysis

GlobusWorld 2015, Chicago, Illinois, United States

Mike Wilde

April 8

Initiation à la plateforme web GALAXY

Galaxy User Group Grand Ouest (GUGGO), Rennes, France

Training offered by GTN Member
Cyril Monjeaud, Yvan Le Bras

April 7

5th GUGGO meeting

Galaxy User Group Grand Ouest (GUGGO), Rennes, France

Training offered by GTN Member
Cyril Monjeaud, Yvan Le Bras

April

Optimization of a Galaxy pipeline in the Magerit supercomputer for analysis of the sugarcane microbiome

CBGP (Centre for Plant Biotechnology and Genomics), Madrid, Spain

Loïc Bourgeois

Slides

April 1

Workshop: NGS Analysis and Workflows using Galaxy

Stanford Center for Genomics & Personalized Medicine, Stanford University, Palo Alto, CA, United States

Training offered by GTN Member
Ramesh V Nair, Somalee Datta, Jennifer Jackson, Anushka Brownley

March 28-31

The Galaxy Framework as a Bioinformatics Solution for Proteomics and Multi-omics Studies

MS2: Integrative Technologies for Advancing Scientific Cores, ABRF 2015, St. Louis, Missouri, United States

Pratik Jagtap

Slides

Use of Genomics Visualization Methods within Galaxy Platform

Aysam Guerler

slides

Globus Galaxies: Experiences in building sustainable services for Science

Ravi Madduri

Slides

March 23-26

RNA-Seq and ChIP-Seq Analysis with Galaxy

UC Davis Bioinformatics Core, Davis, California, United States

Training offered by GTN Member
UC Davis Bioinformatics <bioinformatics.core@ucdavis.edu>

March 24

Single cell sequencing and functional genomics data with Galaxy, UCSC Xena and Gingko

VIZBI 2015, Cambridge, Massachusetts, United States

Robert Aboukhalil, Mary Goldman

March 24

Live on-line tutorial: Visualization of whole genome DNA methylation data in IGB

Online

Nowlan Freese <nfreese@uncc.edu>, Ann Loraine <aloraine@uncc.edu>

March 23

Workshop: Variant detection using Galaxy

Harry Perkins Institute of Medical Research, Nedlands, Western Australia

Training offered by GTN Member
Mark Crowe

March 24-25

Workshop: Extended RNA-Seq analysis

March 23

The Galaxy Project

Global Invertebrate Genomics Alliance (GIGA) II Workshop, Münich, Germany

James Taylor

Slides

March 17

Using Galaxy Workshop

Penn State University, State College, Pennsylvania, United States

Training offered by GTN Member
Martin Cech, Anton Nekrutenko

March 3-5

COST Basic training on NGS data analysis Course

University of Latvia, Riga

Latvian Genome Centre <gec@biomed.lu.lv>

March 3-5

Développement et intégration d’applications sous Galaxy

La Chapelle Sur Erdre, France

Training offered by GTN Member
Frederique Malipier <frederique.malipier@nantes.inra.fr>

March 2-3

Workshop on Bioinformatics Methods in Genomics

RBI, Zagreb, Croatia

Training offered by GTN Member
Enis Afgan

March 2

RNA-Seq analysis using Galaxy

QFAB, University of Queensland, St Lucia, Australia

Training offered by GTN Member
Mark Crowe

February 27

Introduction to Galaxy Workshop

Northwestern University, Chicago, Illinois, United States

Training offered by GTN Member
Dave Clements, Matt Schipma

Slides

February 27

How to expand the Galaxy from genes to Earth in six simple steps

Computation Institute, Chicago, Illinois, United States

Raffaele Montella

Slides

February 27

Variant Detection Using Galaxy

University of Sydney, Sydney, Australia

Training offered by GTN Member
Mark Crowe, Katherine Champ <kchamp@bioplatforms.com>

February 23-27

Bioinformatics Galaxy Course

University of Frieburg, Frieburg, Germany

Training offered by GTN Member
Björn Grüning

February 26

Democratizing the ability to analyze genomic data

Medical University of Innsbruck, Innsbruck, Austria

Enis Afgan

February 24

Intégration d’outils dans la plateforme web Galaxy

Galaxy User Group Grand Ouest (GUGGO), Rennes, France

Training offered by GTN Member
Cyril Monjeaud, Yvan Le Bras

February 16-20

Accessible and Reproducible Large-Scale Analysis with Galaxy

Genome and Transcriptome Analysis, part of Molecular Medicine Tri-Conference, San Francisco, California, United States

James Taylor

Slides

Large-Scale NGS data Analysis on Amazon Web Services Using Globus Genomic

Genomics & Sequencing Data Integration, Analysis and Visualization, part of Molecular Medicine Tri-Conference, San Francisco, California, United States

Ravi Madduri

iReport: An Integrative “omics” Reporting and Visualisation Platform

Andrew Stubbs

February 19

February 2015 GalaxyAdmins Web Meetup

Online

Hans-Rudolf Hotz, Dave Clements

Slides, Video

February 18

Baltimore Area Galaxy Meetup

Baltimore, Maryland, United States

Enis Afgan, Nitesh Turaga

Slides

February 15

Australian Galaxy Developers Workshop

University of Sydney, Sydney, Australia

Simon Gladman, Nuwan Goonasekera

February 9-13

Analyse bioinformatique de séquences sous Galaxy

Montpellier, France

Training offered by GTN Member
J.F. Dufayard <jean-francois.dufayard@cirad.fr>

February 6

Introduction à l'analyse de données RNAseq sous Galaxy

Galaxy User Group Grand Ouest (GUGGO), Rennes, France

Training offered by GTN Member
Yvan Le Bras

January 28

ChIP-Seq Analysis and Visualization using Galaxy and IGB Tutorial

Online

Nowlan Freese <nfreese AT uncc DOT edu>

January 22

Baltimore Area Galaxy Meetup

This meetup is now full.

Baltimore, Maryland, United States

Enis Afgan, Nitesh Turaga

Slides

January 19-20

NGS pipelines with Galaxy

e-Infrastructures for Massively Parallel Sequencing, SciLifeLab, Uppsala, Sweden

Luca Pireddu

January 15-16

Accessible and Reproducible Genomics at Scale with Galaxy

Revolutionizing Next-Generation Sequencing: Tools and Technologies, Leuven, Belgium

James Taylor

January 10-14

Galaxy for SNP and Variant Data Analysis

Plant and Animal Genome XXIII (PAG2015), San Diego, California, United States

Dave Clements

Slides

Designates a training event offered by GTN Member

Designates a training event offered by GTN member(s)

2014

Galaxy @ Plant and Animal Genome (PAG 2014) 2014 GMOD Meeting   Mosquito Informatics  Analyse Bioinformatique de séquences pour l'amélioration des plantes RNA-Seq & ChIP-Seq analysis course using Galaxy Introduction to NGS Bioinformatics   GMOD Malaysia 2014  CTMM TraIT Hackathon Register now for Galaxy Australasia Workshop (GAW 2014)   GlobusWorld 2014   Bio-IT World 2014   Events/UKMay2014  GMOD Online Training   MIPRO 2014   http://www.embnet.org/agm/2014/embnet_tutorial Informatics on High Throughput Sequencing Data Workshop  62nd ASMS Conference on Mass Spectrometry and Allied Topics Using Galaxy for Analysis of High Throughput Sequence Data @ UC Davis Bioinformatics Core   Analisi dati Next Generation Sequencing in Galaxy   ABiMS GCC2014 Hackathon  GCC2014 Training Day  GCC2014, June 30-July2  BOSC 2014    ISMB 2014   QFAB Workshops DNA Sequence Bioinformatics Analysis with the Galaxy Platform Galaxy at ECCB Fourth GUGGO meeting   Australian Bioinformatics Network   Analisi dati Next Generation Sequencing in Galaxy   CIR Interactive Workshop - Introduction to bioinformatics analysis with Galaxy application   2014 Swiss German Galaxy Tour iReport - A tool to create flexible, scalable Galaxy tool interface, presented at the DTL Programmers Meeting Des bonnes pratiques d'intégration d'outils sous Galaxy   Galaxy Training Days   Deciphering Big Data Stacks: An Overview of Big Data Tools, Workshop on Big Data Analytics: Challenges, and Opportunities (BDAC-14)]], Supercomputing 2014 Analisi dati Next Generation Sequencing in Galaxy   Workshop: Extended RNA-Seq analysis Galaxy Cluster to Cloud - Genomics at Scale, at GCE: The 9th Gateway Computing Environments Workshop, part of Supercomputing 2014 (SC14) RNA-Seq & ChIP-Seq analysis course using Galaxy  Galaxy Day  Intro to Galaxy Workshop at Virginia State University RNA-Seq and ChIP-Seq Analysis with Galaxy, UC Davis Bioinformatics Core

Date

Topic/Event

Venue/Location

Links

Contact

December 19

BioMaS: a friendly web service for improved taxonomic assessment of microbiomes

Europe
BiP-Day 2014: Seconda Giornata della Bioinformatica Pugliese, Bari, Italy

B Fosso

Abstract

Science applications in the Bc2S farm

G Donvito

Abstract

December 16-19

RNA-Seq and ChIP-Seq Analysis with Galaxy

North America
UC Davis, California, United States

Complete Workshop

UC Davis Bioinformatics Training <bioinformatics DOT core AT ucdavis DOT edu>

December 12

Introduction to Galaxy Workshop

North America
Virginia State University, Petersburg, Virginia, United States

Slides

Glenn Harris, Dave Clements

December 9-11

Microarray data analysis on Galaxy

Europe
BIRD IFB core facility Nantes University/INSERM, Nantes, France

Raluca Teusan <raluca DOT teusan AT inserm DOT fr>, Audrey Bihouée, Edouard Hirchaud

December 8-9

Implementing qDNAseq in Galaxy: a whole genome sequencing copy number analysis tool

Europe
Benelux Bioinformatics Conference (BBC 2014)

Poster

Stef van Lieshout

iFUSE2 with iREPORT: Integrative Tumour Analysis and Reporting in Galaxy

Saskia Hiltemann

December 5-8

Next Generation Data Analysis Workshop

North America
UC Riverside, Riverside, California, United States

Complete Workshop; Galaxy slides, exercises, manual

Rakesh Kaundal <rkaundal AT ucr DOT edu>

December 3

Using GenAP and Galaxy for Genomics analysis

North America
Sherbrooke, Québec, Canada

Sharen Roland <sroland@genomequebec.com>

Materials

December 3

Galaxy Day

Europe
Institut Curie, Paris, France

IFB Galaxy <ifb DOT galaxy AT sb DASH roscoff DOT fr>

November 26-28

Alveo, a Human Communication Science Virtual Laboratory

Australia
Australasian Language Technology Workshop 2014, Melbourne, Victoria, Australia

Paper

Dominique Estival

November 26-28

RNA-Seq & ChIP-Seq analysis course using Galaxy

PRABI, Lyon, France

Navratil V <navratil AT prabi DOT fr>., Oger C. <oger AT prabi DOT fr>, Veber P. <veber AT prabi DOT fr>, Deschamps C. <deschamps AT prabi DOT fr>, Perriere G. <perriere AT prabi DOT fr>

November 21

Galaxy Cluster to Cloud - Genomics at Scale

GCE: The 9th Gateway Computing Environments Workshop, Supercomputing 2014 (SC14), New Orleans, Louisiana, United States

Paper

Enis Afgan

FACE-IT: A Science Gateway for Food Security Research

Paper

Raffaele Montella

Cloud-based Image Analysis Gateway for Traumatic Brain Injury Research

Paper, Slides

Kyle Chard

PDACS: a portal for data analysis services for cosmological simulations

Paper, Slides

Saba Sehrish

November 19-20

Workshop: Extended RNA-Seq analysis

The University of Queensland, Brisbane, Queensland, Australia

Mark Crowe

November 19

Lifeportal - easy, flexible and powerful service for life scientists

University of Oslo, Oslo, Norway

Slides

Katerina Michalickova, Nikolay Vazov, Thomas Röblitz

November 18-20

Analisi dati Next Generation Sequencing con Galaxy

Cagliari, Italy

CRS4 <ngs-courses@crs4.it>

November 19

Merging and sharing Metabolomics analysis tools in Galaxy

MERLION Metabolomics Workshop, Singapore

Slides

Robert Davidson

November 16

Deciphering Big Data Stacks: An Overview of Big Data Tools

Workshop on Big Data Analytics: Challenges, and Opportunities (BDAC-14), Supercomputing 2014 (SC14), New Orleans, Louisiana, United States

Enis Afgan

November 12

RNA-Seq Alignment and Visualization using Galaxy and IGB

Online

Video

Nowlan Freese <nfreese AT uncc DOT edu>

November 5-8

Rapidly bringing software to biologists with Galaxy and Docker

Biological Data Science, Cold Spring Harbor Laboratory, New York, United States

Slides, PDF

John Chilton

Adventures in scaling Galaxy

Slides, PDF

James Taylor

P22: PIPE-CLIP: A comprehensive online tool for CLIP-seq data analysis

(See PIPE-CLIP)

Beibei Chen

P82: Building Galaxy Japan community

Poster

Ryota Yamanaka

November 6

IFB Cloud computing training for Biology with Galaxy sessions

Galaxy User Group Grand Ouest, Rennes, France

Olivier Sallou, Marie Grosjean, Charles Loomis, Yvan Le Bras, Cyril Monjeaud, Olivier Collin, Christophe Blanchet, Jean-François Gibrat

November 3-6

Galaxy training days

Workshop full, but you can get on the waiting list

INRA de Toulouse Midi-Pyrénées, France

Slides

GenoToul Bioinformatics Team

November 3-5

Des bonnes pratiques d'intégration d'outils sous Galaxy

Workshop full, but you can get on the waiting list

Station Biologique de Roscoff, France

Christophe Caron <christophe.caron@sb-roscoff.fr>

November 3-5

Galaxy NGS Training in the Group of Prof. Dr. Bettina Kempkes

Workshop full, but you can get on the waiting list

Helmholtz Zentrum München, Germany

Björn Grüning <bjoern.gruening@gmail.com>

November 5

11th Galaxy initiation training session

Galaxy User Group Grand Ouest, Rennes, France

Yvan Le Bras, Cyril Monjeaud

October 29 - November 4

Computational & Comparative Genomics Course

Application Deadline: July 15

Cold Spring Harbor Laboratories (CSHL), New York, United States

William Pearson, Lisa Stubbs

October 30

Open Publishing for the Big Data era

UC Davis, Davis, California, United States

Slides

Scott Edmunds

October 22

Launching and managing own Galaxy cluster on the cloud

University of Oslo, Norway

Abdulrahman Azab

October 21

Galaxy: Accessible and Reproducible Data Analysis for Bench Scientists

Institute of Ecology and Evolution, University of Oregon, Eugene, Oregon, United States

Slides

Dave Clements

October 18-22

A case study for high throughput analysis of NGS data for translational research using Globus Genomics

ASHG 2014, San Diego, California, United States

Dina Sulakhe

Pathogenic mutation of coagulation factor X deficiency may prevent atypical hemolytic uremic syndrome

F. Bu

Assessing the hidden genome architecture of structural variants with Globus Genomics Galaxy pipelines

Alex Rodriguez

October 17

Accessible, Transparent, And Reproducible Genomics With Galaxy

IDIES Annual Symposium, Johns Hopkins University, Baltimore, Maryland, United States

Slides

James Taylor

October 14

Building an open and scalable analysis platform for genomics

Best Practices for Big Data in Genomics Workshop, Boston, Massachusetts, United States

Video

Guillaume Bourque

October 10

iReport - A tool to create flexible, scalable Galaxy tool interface

DTL Programmers Meeting, SURF Foundation, Utrecht, The Netherlands

Saskia Hiltemann

How we run Galaxy workflows through the API

Freek de Bruijn

October 6 - 24

Intensive course in High Throughput Sequencing technologies and bioinformatics analysis

University of Oslo, Oslo, Norway

Lex Nederbragt <lex.nederbragt AT ibv.uio.no>, Karin Lagesen <karin.lagesen AT medisin.uio.no>

October 1

Workshop: RNA-Seq analysis using Galaxy

The University of Queensland, Brisbane, Queensland, Australia

Mark Crowe

September 28 - October 3

Genome-wide TALEN off-target prediction

German Conference on Bioinformatics 2014 (GCB 2014), Bielefeld, Germany

Jan Grau

BlockClust: efficient clustering and classification of non-coding RNAs from short read RNA-Seq profiles

Pavankumar Videm

September 30 - October 2

Galaxy Training and Demo Day

2014 Swiss-German Galaxy Tour with events in Bern, Switzerland and Freiburg, Germany

Slides

Hans-Rudolf Hotz and Bjoern Gruening

(second Swiss) Galaxy Workshop

Slides

German Galaxy Developers Day

Slides

September 30

CIR Interactive Workshop - Introduction to bioinformatics analysis with Galaxy application

RBI, Zagreb, Croatia

This workshop is now full

Enis Afgan

September 23-25

Analisi dati Next Generation Sequencing con Galaxy

Cagliari, Italy

CRS4 <ngs-courses@crs4.it>

September 25

RADseq analysis using STACKS on Galaxy

Galaxy User Group Grand Ouest, Rennes, France

Slides, l'exemple de STACKS

Yvan Le Bras, Cyril Monjeaud

September 24

Introduction to Galaxy - Data Manipulation and Visualisation

University of Cambridge, United Kingdom

Course Material

Anne Pajon, Jing Su

September 23

Galaxy Workshop including "Using Galaxy: RNA-seq"

Stanford University, Palo Alto, CA, US

Slides

Organizers, Jennifer Hillman-Jackson

September 22-23

Computational Genomics Workshop

Broad Institute, Boston, MA, US

Broad Institute <ccc-workshop@broadinstitute.org>

September 20-23

A Hadoop‐Galaxy adapter for user‐friendly and scalable data‐intensive bioinformatics in Galaxy

ACM BCB 2014, Newport Beaach, California, United States

Paper

Luca Pireddu

September 19

The Great GigaScience and Galaxy (G3) Workshop

The University of Melbourne, Melbourne, Australia

Nick Wong <nwon AT unimelb DOT edu.au>

September 15

Fourth GUGGO meeting

Galaxy User Group Grand Ouest, Rennes, France

Summary

Cyril Monjeaud, Yvan Le Bras

September 11

Galaxy: Data intensive biology for everyone

Johns Hopkins XSEDE Day, Baltimore, Maryland, United States

Slides

James Taylor

September 11

Tools integration on Galaxy

This workshop is full

Galaxy User Group Grand Ouest, Rennes, France

Summary

Cyril Monjeaud, Yvan Le Bras

September 6-10

At least one tutorial, a panel of European Public Galaxy Instances, and 5 posters

European Conference on Computational Biology (ECCB'14), Strasbourg, France

Presentations

Presenters

August 29

Workshop: Variant detection using Galaxy

The University of Queensland, Brisbane, Queensland, Australia

Mark Crowe

August 25-27

Análise e anotação funcional de seqüências NGS usando Stingray@Galaxy

Fiocruz, Rio de Janeiro, Brasil

Slides (in Portuguese)

Alberto Dávila <davila@fiocruz.br>

August 19-20

Creating and Using Tumor Genome Profiles with Galaxy

Next Generation Dx Summit, Washington, DC, United States

Slides

Jeremy Goecks

August 15

Workshop: An Introduction to De Novo Genome Assembly

The University of Queensland, Brisbane, Queensland, Australia

Mark Crowe

July 28 - August 1

Workshop: DNA Sequence Bioinformatics Analysis with the Galaxy Platform

University of São Paulo (USP), São Paulo, Brazil

Slides

Dave Clements

July 18

Workshop: RNA-Seq analysis using Galaxy

Brisbane, Australia

Mark Crowe

July 17-18

The GigaSolution to data publication, reuse and integration

10th International Conference on Data Integration in the Life Sciences (DILS 2014), Instituto Superior Técnico, Lisbon, Portugal

Demo

Christopher Hunter

July 11-15

ISMB and BOSC 2014

At least six talks and five posters

Boston, Massachusetts, United States

Events/ISMB2014

See presenter list

July 10

An Introduction to Galaxy with the Genomics Virtual Lab

Post-GSA 2014 Workshop, University of Sydney, NSW, Australia

Workshop materials

Mark Crowe

July 7-9

NBIC/BioSB RNA- seq data analysis course

Leiden, the Netherlands

NBIC/BioSB <education AT biosb DOT nl>

June 28-30

Galaxy Hackathon

Homewood Campus of Johns Hopkins University, Baltimore, Maryland, United States

Organizers

June 30 -
July 2

2014 Galaxy Community Conference (GCC2014)

Slides

Organizers

June 23-24

Galaxy : initiation à la phylogénie

Formation en Bioinformatique Plateforme ABiMS, Station Biologique de Roscoff, France

Christophe Caron <christophe.caron@sb-roscoff.fr>

June 18-20

Analisi dati Next Generation Sequencing in Galaxy

Presidio Ospedaliero San Giovanni di Dio, Cagliari, Italy

CRS4 Segreteria <segreteria-ngs@crs4.it>

June 16-20

Using Galaxy for Analysis of High Throughput Sequence Data

UC Davis, California, United States

Complete Workshop

UC Davis Bioinformatics Training <training DOT ucdbio AT gmail DOT com>

June 19

Utilisation du Cloud pour la Biologie

l'Institut Français de Bioinformatique (IFB) à Gif-sur-Yvette, France

Christophe Blanchet <christophe DOT blanchet AT ibcp DOT fr>, Olivier Collin <olivier DOT collin AT irisa DOT fr>

June 15-19

62nd ASMS Conference on Mass Spectrometry and Allied Topics

Including at least 9 workshops, talks and posters

Baltimore, Maryland, United States

See presenter list

June 16

Initiation à l’utilisation de Galaxy

Cycle "Bioinformatique par la pratique" 2014, INRA Jouy-en-Josas, France

Véronique Martin <veronique.martin AT jouy DOT inra DOT fr>, Sophie Schbath

June 17

Analyse primaire de données issues de séquenceurs nouvelle génération sous Galaxy

June 11-12

Galaxy RNAseq de novo/avec référence & cleaning

Formation en Bioinformatique Plateforme ABiMS, Station Biologique de Roscoff, France

June 10

Initiation à l’utilisation de Galaxy

Cycle "Bioinformatique par la pratique" 2014, INRA Jouy-en-Josas, France

Véronique Martin <veronique.martin AT jouy DOT inra DOT fr>, Sophie Schbath

June 11

Analyse primaire de données issues de séquenceurs nouvelle génération sous Galaxy

June 9-10

Informatics on High Throughput Sequencing Data Workshop

Toronto, Canada

Slides (PDF), PPTX, Video

Francis Ouellette

June 2-3

Open (and Big) Data – the next challenge

1st Asian Conference on Open Access Scholarly Publishing, Bangkok, Thailand

Slides

Scott Edmunds

May 29

Delivering Bioinformatics MapReduce Applications in the Cloud

MIPRO 2014. Opatija, Croatia

Proceedings

Lucas Forer

May 26

Galaxy and kissplice/kissDE tutorials

PRABI, Lyon, France

Navratil V <navratil AT prabi DOT fr>., Lacroix V <vincent DOT lacroix AT univ-lyon1 DOT fr>

May 19-23

Installing Galaxy Workshop

Application deadline: April 28

GMOD Online Training

Carl Eberhard, Amelia Ireland

May 19-21

P048: Optimizing a High-Throughput Workflow for a Rice Genotyping Services Lab

PAG Asia 2014, Singapore

Maria Ymber V. Reveche

W028: An Open Platform Approach for Management and Analysis of Next-Generation Genotyping Data By Breeders and Geneticists

Ramil P. Mauleon

W008: Optimizing a High-Throughput SNP Genotyping Workflow for Rice Improvement

Michael J. Thomson

May 19

Initiation au traitement et à l'analyse des données métabolomiques sur la plateforme scientifique web Galaxy IFB-MetaboHUB

8e Journées Scientifiques du RFMF, Lyon, France

Réseau Français de Métabolomique et Fluxomique <rfmf@bordeaux.inra.fr>

May 16

Galaxy Initiation

Formation en Bioinformatique Plateforme ABiMS, Station Biologique de Roscoff, France

Christophe Caron <christophe.caron@sb-roscoff.fr>

May 12-14

Short course on RNA-seq and ChIP-seq

University of Bergen, Bergen, Norway

David Fredman <david.fredman@uib.no>

May 13

Analysis Reproducibility in Data (and Software) Dependent Research

NIH BD2K Workshop on Discovering, Citing, Tracking Biomedical Software, Bethesda, Maryland, United States

Slides, Video (starting at 19 minutes)

James Taylor

May 13

Galaxy Workshop

Institute of Genetics and Molecular Medicine (IGMM), Edinburgh, UK

Sides

Dave Clements

May 12

Galaxy Workshop

University of Edinburgh, Edinburgh, UK

Galaxy Sides, Edinburgh Genomics Sides

Galaxy Project Update

5th Edinburgh Bioinformatics Meeting, University of Edinburgh, Edinburgh, UK

Sides

May 9

Introduction to Galaxy Workshop

The Genome Analysis Centre (TGAC), Norwich, United Kingdom

Slides

May 6-7

Scaling Galaxy for Big Data

NGS Data after the Gold Rush, TGAC, Norwich, United Kingdom

Slides

April 29 -
May 1

Three tutorials and at least five talks

BioIT World
Boston, Massachusetts, United States

Slides

See tutorial and talk list

April 15-17

Globus Genomics Tutorial

GlobusWorld, Chicago, Illinois, United States

Slides

Dina Sulakhe, Alex Rodriguez

Globus Genomics: Enabling high-throughput cloud-based analysis and management of NGS data for Translational Genomics research at Georgetown

Slides

Yuriy Gusev

Building a Low-budget Public Resource for Large-scale Proteomic Analyses

Slides

Anoop Mayampurath

April 10

Exploring DNA analyses in the Cloud

CRP-Santé, Luxembourg

Victoria Dominguez

April 8-9

Building a scalable Galaxy cluster for biomedical research in The Netherlands

Netherlands Bioinformatics Conference (NBIC2014), Lunteren, The Netherlands

Slides, Abstract

David van Enckevort, Anthony Potappel

April 7-9

Formation en bio-informatique "NGS et cancer"

Île-de-France, France

Vidéos, données test, diapositives

April 6-9

Customized, Reproducible and Accessible Tools for Tandem Proteogenomic-Metaproteomic Analysis

US HUPO 2014, Seattle, Washington, United States

Poster

Tim Griffin

April 3

Métagénique et métagénomique marine : workflows pour l’analyse de données à haut-débit sous Galaxy

Congress Biotech Gen2Bio

Slides

Stéphane Audic, Laure Quintric

e-Biogenouest, vers un Environnement Virtuel de Recherche (VRE) orienté Sciences de la vie ?

Slides

Yvan Le Bras

April 1 & 3

Galaxy Training

University of Melbourne, Australia

Agenda with links

VLSCI, HABIC, ITS Research

March 26-30

Galaxy toolset for Drosophila genomics

and one-on-one help in the Flybase Demonstrations Room

Drosophila Research Conference, San Diego, California, United States

Anton Nekrutenko, Jen Jackson

March 24-25

Galaxy Australasia Workshop 2014 (GAW2014)

Melbourne, Australia

Slides

Organisers

March 17-19

TraIT Hackathon

The Hyve, Utrecht, Netherlands

Event wiki

March 7

Galaxy Workshop

University of Georgia, Athens, Georgia, United States

Slides

Carl Eberhard, Dave Clements, Dannon Baker, Raj Ayyampalayam

February 26-28

GMOD Malaysia 2014

Kuala Lumpur, Malaysia

Slides

Amelia Ireland, Dave Clements

February 27

Introduction to NGS Bioinformatics

Nowgen Centre, Manchester, United Kingdom

Jan Taylor <training AT nowgen DOT org DOT uk>

February 11-13

RNA-Seq & ChIP-Seq analysis course using Galaxy

PRABI, Lyon, France

Navratil V <navratil AT prabi DOT fr>., Oger C. <oger AT prabi DOT fr>, Veber P. <veber AT prabi DOT fr>, Deschamps C. <deschamps AT prabi DOT fr>, Perriere G. <perriere AT prabi DOT fr>

February 12-15

Advances in Genome Biology and Technology (AGBT)

Marco Island, Florida, United States

Anton Nekrutenko, JamesTaylor

February 10-14

Analyse Bioinformatique de séquences pour l'amélioration des plantes

Campus la Gaillarde, Montpellier, France

Yolande OLIVIER <yolande DOT olivier AT supagro DOT inra DOT fr>

February 4

Reproducible Web-based bioinformatics: a tutorial on using the Galaxy Web Portal

Alberta Children's Hospital, Calgary, Canada

Paul Gordon <gordonp AT ucalgary DOT ca>

February 5

RNASeq analysis using the Galaxy Web Portal

February 5-6

Mosquito Informatics

EBI, Hinxton, United Kingdom

Dan Lawson <lawson AT ebi DOT ac DOT uk>

February 5-7

Galaxy IFB/MetaboHUB

Formation en Bioinformatique Plateforme ABiMS, Station Biologique de Roscoff, France

S. Goulitquer <sophie.goulitquer@sb-roscoff.fr>

January 28

Galaxy pour l'analyse de données métabolomique

Formation en Bioinformatique Plateforme ABiMS, Station Biologique de Roscoff, France

S. Goulitquer <sophie.goulitquer@sb-roscoff.fr>

January 17

Large-scale multi-omic data integration and analysis: challenges and opportunities

6th Annual BICB Research Symposium, University of Minnesota Rochester, Minnesota, United States

Slides

Timothy Griffin

January 16-17

2014 GMOD Meeting

San Diego, California, United States

Links

Dave Clements

January 11-15

Galaxy for NGS Data Analysis: A Hands-on Computer Demo

Plant and Animal Genome XXII (PAG 2014), San Diego, California, United States

Links

Dave Clements, Anushka Brownley

Galaxy Cloudman: A Gentle Introduction to Data Analysis on the Cloud

Part of the GMOD Workshop

Dave Clements

Plus 3 more talks and 4 posters

See list

2013

Plant and Animal Genome (PAG 2013) Enabling Compute Clusters atop OpenStack @ OpenStack MiniConf, Linux Conf AU, Canberra, Australia] Introduction to Galaxy Boot Camp @ UC Davis Bioinformatics Core ABRF 2013 QFAB Workshops GMOD 2013 Biocuration 2013 Missouri Galaxy Workshop Tour 2013 Great Lakes Bioinformatics Conference (GLBIO) 2013 GalaxyAdmins Meetups Workshop in Next-Generation Sequence Analysis and Metabolomics Bio-IT World Asia 2013 Informatics on High Throughput Sequencing Data Workshop  Galaxy Workshop @ ESHG 61st ASMS Conference  RNA-Seq Analysis Workshop  2013 Galaxy Community Conference (GCC2013) Events/RTWorkshopTour2013 BOSC 2013   ISMB/ECCB 2013   XSEDE13 RDA Second Plenary Meeting The Genomic Bioinformatics Workshop   Individualizing Medicine Conference   Beyond the Genome   Analisi dati Next Generation Sequencing in Galaxy: exome, RNA-Seq, metagenomica   Galaxy Training Days   AMATA early career researcher workshop 2013 South Africa Galaxy Workshop Tour   eResearch Australasia 2013 ASHG 2013 The 8th International Conference on Genomics (ICG-8) NGS解析Galaxy特集とDDBJ Galaxy Day

Date

Topic/Event

Venue/Location

Links

Contact

December

Galaxy RNA-Seq Analysis: Tuxedo Protocol

Hankyong University, Ansung, South Korea

Slides (in English)
Video (in Korean)

ChangBum Hong / 홍창범 <cb DOT hong AT kt DOT com>

December 12-16

Web-based Analysis of Next Generation Sequence Data

Part of Next Generation Data Analysis Marathon, UC Riverside, Riverside, California, United States

slides, exercises, manual

Neerja Katiyar, Tyler Backman, Rebecca Sun, Thomas Girke

December 10-14

eBioKit Bioinformatics Workshops

The Mikocheni Agricultural Research Institute, Dar es Salaam, Tanzania

Etienne P. de Villiers, Erik Bongcam-Rudloff

December 10

Introduction to Next-Generation Sequence Analysis with Galaxy

Session is full but waiting list is open

UC Davis Bioinformatics Bootcamps, Davis, California, United States

Workshop Materials

UC Davis Bioinformatics Training <training DOT ucdbio AT gmail DOT com>

December 11

Next-Generation Sequence Alignment and Variant Discovery

Workshop Materials

December 12

Genome Assembly using Next-Generation Sequence Data

Workshop Materials

December 13

Introduction to the Amazon Cloud for Galaxy and the Command-Line

Workshop Materials

December 11

Using Galaxy to Understand Cancer Genomics

National Cancer Institute, Rockville, Maryland, United States

Slides, Video

Jeremy Goecks

December 9

Workshop : An Introduction to De Novo Genome Assembly using Galaxy

The University of Queensland, St Lucia, Queensland, Australia

Mark Crowe

December 4-6

TAG (Tumor Analysis in Galaxy): a Web Server Application for the Detection of Somatic Mutations in the Absence of Associated Healthy Control

Clinical Genomics & Informatics, Lisbon, Portugal

Andrew Stubbs

Scalability, Reproducibility and Traceability in Large-Scale NGS Facilities

Gianmauro Cuccuru

December 4

Galaxy Day

Les inscriptions au Galaxy Day sont closes

Paris (Institut Curie), France

Meeting Report, Slides

Organisateurs <ifb DOT galaxy AT sb DASH roscoff DOT fr>

November 29

Actualité Galaxy (Galaxy-IFB, GUGGO, Instances dans le GO)

Workflows en Bioinformatique, INRIA / IRISA - Campus de Beaulieu, Rennes, France

Slides

Yvan le Bras <Yvan DOT le_bras AT irisa DOT fr>, Cyril Monjeaud <Cyril DOT Monjeaud AT irisa DOT fr>

Exemple de workflow en biologie marine - "Metabomer: avant/après Galaxy"

Sophie Goulitquer

November 22

Variant Detection using Galaxy workshop

The University of Queensland, St Lucia, Queensland, Australia

Mark Crowe

November 20

November GalaxyAdmins Meetup

Online

Slides, Screencast

Dave Clements, Srinivas Maddhi, Nate Coraor

November 19

NGS解析Galaxy特集とDDBJ including

Galaxy入門とワークフロー構築
数百人規模オミックス解析のための Galaxy 活用術
DDBJ Pipeline の紹介と実習

新潟大学 駅南キャンパス「ときめいと」 Japan

All workshop materials

お問い合わせの

山口 敦子 <atsuko AT dbcls DOT jp>, 八谷 剛史, 長崎 英樹 <hnagasak AT nig DOT ac DOT jp>

November 17

Extending the Galaxy portal with parallel and distributed execution capability

The Fourth International Workshop on Data Intensive Computing in the Clouds (DataCloud) 2013, Denver, Colorado, United States

Paper

Ketan Maheshwari

November 10-12

ChemicalToolBoX and its application on the study of the drug like and purchasable space

9th German Conference on Chemoinformatics, Fulda, Germany

Xavier Lucas, Björn A Grüning, Stefan Günther

November 6-12

Computational and Comparative Genomics Course

Application Deadline: July 15, 2013

Cold Spring Harbor Laboratory, New York, United States

James Taylor

November 6-8

Galaxy Training Days

Workshop is full, but there is space on the waiting list

INRA Auzeville, France

Workshop Materials

Sarah Maman <sarah DOT maman AT toulouse DOT inra DOT fr>

November 7

RNA-Seq Analysis using Galaxy workshop

Children’s Medical Research Institute, Westmead, New South Wales, Australia

Mark Crowe

November 6

Workshop: An Introduction to Variant Detection using Galaxy

Children’s Medical Research Institute, Westmead, New South Wales, Australia

Mark Crowe

November 6

Galaxy 101 NGS: Introduction to Polymorphism Detection via Variant Analysis
Guest Lecture BME110

University of California, Santa Cruz, United States

Live demo & discussion
ucsc-bme110-20131106-actual

Jennifer Jackson

November 2-6

A zebrafish cloud computational resource for environmental health science research

141st American Public Health Association (APHA) Annual Meeting, Boston, Massachusetts, United States

Peter Tonellato

November 4

RNA-Seq Analysis using Galaxy workshop

The University of Queensland, St Lucia, Queensland, Australia

Mark Crowe

October 31 - November 1

Advanced NGS Course: RNA-Seq Data Analysis

This workshop is full

Leiden, The Netherlands

Celia van Gelder, Hoen, 't Peter-Bram

October 30 - November 2

Wrangling Galaxy’s reference data

Genome Informatics, Cold Spring Harbor Laboratory, New York, United States

Dan Blankenberg

Improving reproducibility using automated testing frameworks

Dave Bouvier

Galaxy's long-term sustainability—Deployment to the XSEDE system

Nate Coraor

Understanding cancer genomes using Galaxy

Poster

Jeremy Goecks

Finding missing analysis tools with Galaxy ToolShed—A case of mitochondrial RNA modification

Anton Nekrutenko

Bioinformatics tutorials using Galaxy

Gayle Philip

October 30 - November 1

Using Galaxy for Metabolomics

The 8th International Conference on Genomics (ICG-8), Shenzhen, China

PDF, PPTX, SlideShare

Robert Davidson

"The IRRI Genotyping Service Laboratory Galaxy: Bioinformatics for Rice Scientists"

PDF, SlideShare

Ramil Mauleon

October 22-26

Introduction to Integrative Analysis with GenomeSpace

ASHG 2013, Boston, Massachusetts, United States

Michael Reich

High Throughput Data Analysis and Visualization with Galaxy

This workshop is sold out.

Polymorphism Detection and Visualization

Anton Nekrutenko, Jennifer Jackson

Poster 1633T: Globus Genomics: Enabling high-throughput analysis and management of NGS data for neurodevelopmental disorders

Ravi Madduri, Dinanath Sulakhe, Alex Rodriguez and Paul Dave
And see the Globus Genomics Booth

Poster 1530W: Implementing a High Performance, Reusable Consensus Calling Pipeline for Next Generation Sequencing using Globus Genomics

Poster

Poster 1510T: Consensus Genotyper for Exome Sequencing: Improving the Quality of Exome Variant Genotypes

Poster

October 21-26

EMBO Practical Course on Analysis of High-Throughput Sequencing Data

EMBL-EBI

slides

Francis Ouellette

October 21-25

NGS Data Analysis and Galaxy Workshop

University of Cape Town

2013 South Africa Galaxy Workshop Tour

Slides

Dave Clements

October 20-25

Genomics Virtual Laboratory Workshop

eResearch Australasia 2013, Brisbane, Australia

Mark Crowe, Ron Horst, Andrew Lonie

Image Analysis and Processing in the Clouds using Scalable eResearch Workflow-Based System

Workshop Materials

Project Team

MILXCloud: A faster, smarter way to process Medical imaging data in the cloud

Neil Burdett <Neil DOT Burdett AT csiro DOT au>

Lessons from developing the Genomics Virtual Lab

Slides

Ron Horst <r DOT horst AT uq DOT edu DOT au>

Early Outcomes of the Characterisation Virtual Laboratory

Wojtek Goscinski <wojtek DOT goscinski AT monash DOT edu>, Anitha Kannan <anitha DOT kannan AT monash DOT edu>

The Human Communication Science Virtual Lab

Presentation

Peter Sefton <p DOT sefton AT uws DOT edu DOT au>

October 21-24

ARANGS13: Automated and reproducible analysis of NGS data

GTPB, Instituto Gulbenkian de Ciência, Oeiras, Portugal

Workshop materials

Pedro Fernandes <pfern AT igc DOT gulbenkian DOT pt>

October 22

Analyzing NGS Data with Galaxy

Dana-Farber Cancer Institute, Boston, Massachusetts, United States

Galaxy 101 NGS: Introduction to Polymorphism Detection, Managing a Local Galaxy Instance

Anton Nekrutenko, Jennifer Jackson, Anushka Brownley

October 14-18

NGS Data Analysis and Galaxy Workshop

University of Pretoria

2013 South Africa Galaxy Workshop Tour

Slides

Dave Clements

October 13-16

AMATA early career researcher workshop

AMATA 2013, Gold Coast, Queensland, Australia

Mark Crowe, Annette McGrath

October 9-11

Galaxy Training Days

GenoToul bioinformatics facility, INRA, Toulouse Auzeville, France

Workshop materials

Sarah Maman <sarah DOT maman AT toulouse DOT inra DOT fr>

October 8-11

Analisi dati Next Generation Sequencing in Galaxy: exome, RNA-Seq, metagenomica

CRS4, Loc. Pixinamanna, Pula CA, Italy

Paolo Uva <ngs-courses@crs4.it>

October 7-8

Next-Generation Sequencing Data Interpretation: Enhancing Reproducibility and Accessibility

NGS & Bioinformatics Summit Europe, Berlin, Germany

Anton Nektutenko

Using Galaxy to Provide a NGS Analysis Platform

Slides

Hans-Rudolf Hotz

October 4

Galaxy Ecosystem & UCSC
Guest Lecture BME110

University of California, Santa Cruz, United States

Slides & Live Demo

Jennifer Jackson

October 3

Galaxy 101: NGS Data Analysis

Workshp is full, get on waiting list

University of Minnesota, Minneapolis, United States

John Garbe, Getiria Onsongo

October 1-3

RNA-Seq & ChIP-Seq analysis course using Galaxy

PRABI, Lyon, France

Navratil V <navratil AT prabi DOT fr>., Oger C. <oger AT prabi DOT fr>, Veber P. <veber AT prabi DOT fr>, Deschamps C. <deschamps AT prabi DOT fr>, Perriere G. <perriere AT prabi DOT fr>

October 1-3

Galaxy as a platform for High-throughput Genomics

Beyond the Genome 2013, San Francisco, California, United States

Slides

Jeremy Goecks

Development of a genomic region database and analysis tool for the Galaxy platform

Matloob Khushi <Matloob DOT khushi AT sydney DOT edu DOT au>

September 30 - October 2

Analysis of Genomic Sequence Data With Galaxy, part of the Cancer Care session

Individualizing Medicine Conference, Mayo Clinic, Rochester, Minnesota, United States

James Taylor

September 28 - October 1

Galaxy Workshop

The Genomic Bioinformatics Workshop, Sydney, Australia

Ross Lazarus, Dan Blankenberg

September 27

Enabling Multi-task computation on Galaxy-based Gateways using Swift

Science Gateways Institute Workshop, Indianapolis, Indiana, United States

Slides

Ketan Maheshwariby

September 25-27

RNA-Seq & ChIP-Seq analysis course using Galaxy

PRABI, Lyon, France

Navratil V <navratil AT prabi DOT fr>., Oger C. <oger AT prabi DOT fr>, Veber P. <veber AT prabi DOT fr>, Deschamps C. <deschamps AT prabi DOT fr>, Perriere G. <perriere AT prabi DOT fr>

September 16-18

GigaGalaxy: A GigaSolution for reproducible and sustainable genomic data publication and analysis

RDA Second Plenary Meeting

Poster

Scott Edmunds

September 16-20

Bioinformatics Short Course

Registration is full, but there is a waiting list

UC Davis Bioinformatics Core Davis, California, United States

Course materials

Email <ucdbio AT gmail DOT com>

September 12

次世代序列分析平台/ Galaxy (Pre-installed in Bio-Linux) for Next Generation Sequencing

2013 workshop@Life Sci Library: Intelligent Environments of Future Lab for biomedical Research/ 2013 實驗室智慧數位化與次世代生物序列分析平台推廣, Academia Sinica, Taipei, Taiwan

Slides

蘇聖堯 <daniel0523 AT gmail DOT com>

September 9-11

RNA-Seq Workshop: From Pipette to P-value!

UC Davis Bioinformatics Core Davis, California, United States

Course materials

Email <ucdbio AT gmail DOT com>

July 21-25

Experiences in building a Next-Generation Sequencing Analysis Service using Galaxy, Globus Online, and Amazon Web Services

XSEDE13, San Diego, California, United States

PDF, PPTX

Ravi Madduri

A Sustainable National Gateway for Biological Computation

PDF, PPTX

Josephine Palencia

Supporting Genomics and other Biological Research

Richard LeDuc

National Center for Genome Analysis Support Leverages XSEDE Resources to Support Life Scientists

Slides, Paper

July 19-23

ISMB/ECCB, BOSC and MS SIG 2013

Talks, posters and workshops. Lots of them.

Berlin, Germany

Slides

Galaxy Outreach <outreach AT galaxyproject DOT org>

July 18-23

Introduction to Galaxy Workshop

National Institute of Environmental Health Sciences (NIEHS)

2013 Research Triangle Workshop Tour, North Carolina, United States

Slides

Dave Clements

Introduction to Galaxy Workshop

University of North Carolina, Chapel Hill

Slides

Galaxy Installation Tutorial

Introduction to Galaxy Workshop

North Carolina State University

Slides

July 4

RNA-Seq analysis using Galaxy

QUT Kelvin Grove Campus, Kelvin Grove, Australia

Mark Crowe <m DOT crowe AT qfab DOT org>

July 1-4

A Small Step into Galaxy, a Faster Pace for Metabolomics

JOBIM 2013, Toulouse, France

Pierre Pericard, Gildas Le Corguillé, Urszula Czerwinska, Marion Landi, Franck Giacomoni, Christophe Duperier, Jean-François Martin, Sophie Goulitquer, Estelle Pujos-Guillot and Christophe Caron

Towards a Life Sciences Virtual Research Environment

Slides, Demo

Yvan Le Bras, Aurelien Roult, Cyril Monjeaud, Mathieu Bahin, Olivier Quenez, Claudia Heriveau, Anthony Bretaudeau, Olivier Sallou, Olivier Collin

June 30 - July 2

2013 Galaxy Community Conference (GCC2013)

University of Oslo, Oslo, Norway

Organizers

June 25-28

Galaxy in a Clinical Setting: Architecture and Storage Implications

The Clinical Genome Conference, San Francisco, California, United States

Sanjay Joshi

June 20-22

W1: Next-generation sequencing data analysis with GenomeSpace and Galaxy

FGED Conference, Seattle, Washington

Slides

Dave Clements

June 21

RNA-Seq analysis using Galaxy

Griffith University Nathan Campus, Nathan, Australia

Mark Crowe <m DOT crowe AT qfab DOT org>

June 20

RNA-Seq Analysis Workshop

This workshop is sold out.

San Diego Center for Systems Biology (SDCSB), La Jolla, California

Tutorial, Slides

Chris Benner, Gregory Grant, Harry Birnbaum

June 20

Introduction to RNAseq

This workshop is sold out.

UC Davis Bioinformatics Core Davis, California, United States

Workshop material

Nikhil Joshi <najoshi AT ucdavis DOT edu>

June 19

Introduction to Galaxy

This workshop is sold out.

Workshop material

June 13-14

Genomics and Epigenomics with Deep Sequencing, the 24th CDB Meeting

RIKEN, CDB, Kobe, Japan

Anton Nekrutenko

June 9-13

61st ASMS Conference on Mass Spectrometry and Allied Topics

Includes at least 1 workshop and 9 posters either about or utilizing Galaxy

Minneapolis, Minnesota, United States

Events/ASMS2013

John Chilton

June 8-11

WS08: Biomedical Data Analysis with Galaxy Workshop

European Human Genetics Conference (ESHG2013), Paris, France

Anton Nekrutenko, Enis Afgan

June 6-7

Informatics on High Throughput Sequencing Data Workshop

Toronto, Ontario, Canada

PDF, PPT, Video

Francis Ouellette

May 31

Introduction to RNAseq

UC Davis Bioinformatics Core Davis, California, United States

Workshop material

Nikhil Joshi <najoshi AT ucdavis DOT edu>

May 28-31

A Genomics Virtual Lab for Cancer Research

Bio-IT World Asia, Singapore

Dominique Gorse

Next-Gen Sequencing Analysis Using GigaGalaxy

Slides

Tin-Lap Lee

Open Source and Web-Based Analysis of NGS Data Using Galaxy at the Center for Research Informatics University of Chicago

Jorge Andrade

May 27-30

Galaxy Workshop

GenoToul bioinformatics facility, INRA, Toulouse Auzeville, France

Slides & Exercises for First step, Reads alignment and SNP calling, RNAseq alignment and transcripts assemblies, sRNAseq

Sarah Maman <sarah DOT maman AT toulouse DOT inra DOT fr>

May 27-29

Course: Genomic Resequencing: Variant Detection and Interpretation in a Diagnostic Context

Erasmus MC, Rotterdam, the Netherlands

Patrick Koks <Patrick DOT koks AT nbic DOT nl>, NBIC Education

May 24

Introduction to Galaxy

Sacramento, California, United States

Workshop material

Nikhil Joshi <najoshi AT ucdavis DOT edu>, UC Davis Bioinformatics Core

May 23

Fournir des Services de bioinformatique sur le Cloud

l'Institut de Biologie de Lille, France

Sophie Gallina <Sophie DOT gallina AT univ-lille1 DOT fr>

May 21
May 29

Initiation à l’utilisation de Galaxy

Les deux ateliers sont maintenant complets

Cycle "Bioinformatique par la pratique" 2013, INRA Jouy-en-Josas, France

Sandra Dèrozier, Valentin Loux, Véronique Martin <veronique.martin AT jouy DOT inra DOT fr>

May 22
May 30

Analyse de données issues de séquenceurs nouvelle génération sous Galaxy

Les deux ateliers sont maintenant complets

Jean-François Gibrat, Valentin Loux, Véronique Martin <veronique.martin AT jouy DOT inra DOT fr>

May 16-17

Galaxy Workflows for Bioinformatics Analysis, and
Workshop 1A – Galaxy Workflows for Bioinformatics Analysis

Workshop in Next-Generation Sequence Analysis and Metabolomics (WiNGS), UNC-Charlotte, North Carolina, United States

James Taylor

May 15

GalaxyAdmins May 2013 Meetup

GalaxyAdmins web meetup

Slides, screencast

Andrew Warren, Srinivas Maddhi, Dave Clements

May 14-16

Tutorial: Exploring and Enabling Biomedical Data Analysis with Galaxy

Great Lakes Bioinformatics Conference (GLBIO) 2013, Pittsburgh, Pennsylvania, United States

Anton Nekrutenko

April 29 - May 2

Introduction to Galaxy Workshops

Washington University in St. Louis

Slides

Dave Clements

Saint Louis University

Slides

University of Missouri Columbia

Slides

April 22-26

Using Galaxy to separate potentially functional and benign SNPs

Mutation Detection 2013, Lake Louise, Canada

Poster

Belinda Giardine

April 12

Next generation sequencing data interpretation: enhancing reproducibility and accessibility

Reed College, Portland, Oregon, United States

Anton Nekrutenko

April 12

Transparent, accessible, reproducible analysis with Galaxy

The Genome Analysis Centre (TGAC), Norwich, United Kingdom

Slides

Dave Clements

April 11

Introduction to Galaxy Workshop

Slides

April 9-11

Workshop: Integrated Research Data Management for Next Gen Sequencing Analysis Using Galaxy and Globus Online Software-as-a-Service

BioIT World, Boston, Massachusetts, United States

Ravi K. Madduri, Alex R. Paciorkowski, Vas Vasiliadis

Talk: Integrated Research Data management and Analysis in NGS using Globus Online, Galaxy and Amazon Web Services

Ravi K. Madduri

April 10

Introduction to Galaxy Boot Camp

Registration is full

UC Davis Bioinformatics Core Davis, California, United States

Workshop material

Nikhil Joshi <najoshi AT ucdavis DOT edu>

April 11

Introduction to RNASeq Boot Camp

Registration is full

Workshop material

Nikhil Joshi <najoshi AT ucdavis DOT edu>

April 7-10

GO Galaxy Workshop

Biocuration 2013, Cambridge, United Kingdom

Galaxy Intro slides, GO Galaxy Slides

Dave Clements, Chris Mungall

April 7-8

BOSC/Broad Interoperability Hackathon

Cambridge, Massachusetts, United States

Brad Chapman

April 5-6

Galaxy Project Update

2013 GMOD Meeting, Cambridge, United Kingdom, immediately prior to Biocuration 2013

Slides

Dave Clements

Community Building and Support

Slides

Installing Galaxy on the Cloud Workshop

Tutorial

March 26-28

RNA Technologies and Analysis Workshop

DOE JGI User Meeting

Zhong Wang, Len Pennacchio

March 22

Introduction to Variant Detection Using Galaxy

QFAB, Brisbane, Australia

Mark Crowe <m DOT crowe AT qfab DOT org>

March 19-22

GenomeSpace Tutorial

VIZBI 2013, Broad Institute, Cambridge, Massachusetts, United States

Michael Reich

March 20

NBIC Galaxy at SURFsara's HPC cloud

GalaxyAdmins web meetup

Slides, Screencast

Hailiang Leon Mei <hailiang DOT mei AT nbic DOT nl>,David van Enckevort <david.van.enckevort@nbic.nl>

March 18-20

Galaxy High Throughput Genotyping Pipeline for GeneTitan

2013 Summit on Translational Bioinformatics. San Francisco, California, United States

Proceedings

Oleksiy Karpenko

The Stem Cell Commons: an exemplar for data integration in the biomedical domain driven by the ISA framework

Proceedings

Shannan Ho Sui

March 13

Galaxy Feature Update
UCSC Genome Browser Staff

University of California, Santa Cruz, United States

Slides & Live Demo

Jennifer Jackson

March 8

RNA-Seq Analysis Using Galaxy

QFAB, Brisbane, Australia

Mark Crowe <m DOT crowe AT qfab DOT org>

March 5

Galaxy for Biologists

Caltech, Pasadena, California, United States

Slides

Dave Clements

March 2-5

Accessible, Transparent and Reproducible Analysis With Galaxy, part of

Galaxy for Core Facilities, part of

ABRF 2013
Palm Springs, California, United States

SW1 Workshop slides, W6 Workshop slides

Dave Clements

February 4 & 5

Introduction to Galaxy Workshop

Johns Hopkins University, Baltimore, Maryland, United States

Slides

Dave Clements, Mo Heydarian

February 4

Introduction to Galaxy Boot Camp

UC Davis Bioinformatics Core Davis, California, United States

Tutorial

Nikhil Joshi <najoshi AT ucdavis DOT edu>

January 29

Enabling Compute Clusters atop OpenStack

OpenStack MiniConf, Linux Conf AU, Canberra, Australia

Enis Afgan

January 14-18

Ecole de bioinformatique : Initiation au traitement des données de génomique obtenues par séquençage à haut débit

Station Biologique de Roscoff, France

Slides and tutorials

<ecole-bioinfo AT aviesan DOT fr>

January 16

Deploying Production Galaxy Environments on OpenStack with CloudBioLinux and CloudMan

January GalaxyAdmins Web Meetup

Slides
Related Documentation
Video

John Chilton, Srinivas Maddhi, Dave Clements

January 12-16

Galaxy Update 2013

Part of the GMOD Workshop at Plant and Animal Genome (PAG 2013), San Diego, California, United States

Slides & Live Demo

Jennifer Jackson

2012

Workshop on Genomics  Plant and Animal Genome (PAG 2012)   Reproducible workflows for next generation sequencing analysis   DDBJ   April 2012 GMOD Meeting    Galaxy Tour de France 2012    Informatics on High Throughput Sequencing Data Workshop Galaxy: un environnement d'analyses bioinformatiques Atelier Galaxy   ISMB 2012   2012 Galaxy Community Conference  Bioinformatics Short Course: Mutation Detection Using Massively Parallel Sequencing: From Data Generation to Variant Annotation   2012 GMOD Summer School    South African Genetics and Bioinformatics Society Conference Swiss Galaxy Day Extending High-Performance Computing Beyond its Traditional User Communities Workshop  ASHG 2012 

Date

Topic/Event

Venue/Location

Links

Contact

December 17-19

Workflows and the Cloud for Reproducible Bioinformatics

ISCB-Asia/SCCG 2012, Shenzhen, China

Tavaxy:

CBIIT: IRRI: Workflow4Ever:

Scott Edmunds, Peter Li

November 28 - December 4

Computaional & Comparative Genomics Course

This was rescheduled due to hurricane Sandy

Cold Spring Harbor Laboratory, New York, United States

William Pearson, James Taylor

November 28

GigaDB and Galaxy - revolutionizing data dissemination, organization and analysis

International Conference on Genomics & Bio-IT APAC 2012, Hong Kong

Slides: PDF, PPTX, Video (starts at 68:20)

Peter Li

November 28

RNA-seq workshop

HSPH Center for Health Bioinformatics through Harvard Catalyst, The Harvard Clinical and Translational Science Center, Boston, MA, United States

Organizer

November 16-17

Analyzing NGS data in a Bioinformatics Core Facility

Next Generation Sequencing Congress 2012, London Heathrow, United Kingdom

Hans-Rudolf Hotz

November 14

Deploying Galaxy on a Shared-Node Cluster at UAB

Galaxy Admins November Web Meetup

Slides, screencast

Curtis Hendrickson, Srinivas Maddhi

November 6-10

Galaxy 101: Data Integration, Analysis and Sharing

American Society of Human Genetics (ASHG), San Francisco, California, United States

Slides
Tutorial

Jeremy Goecks, Jennifer Jackson

Working with High-Throughput Data and Data Visualization

Tutorial

November 13-15

Analyse des données RNA-seq et ChIP-seq (séquençage haut-débit), à l'aide d'outils orientés vers un public de biologistes

PRABI (Pôle Rhône-Alpes de Bioinformatique), Doua de l'Université Claude Bernard - Lyon, Lyon, France

Guy Perrière

November 12-14

The Genome Access Course

Cold Spring Harbor Laboratory, New York, United States

Assaf Gordon

November 11

Deploying Bioinformatics Workflows on Clouds with Galaxy and Globus Provision

DataCloud2012

Paper

Bo Liu

November 7

Galaxy 101 and RNA-seq Analysis and Visualization

QB3 - Computational Genomics Resource Laboratory, Univ of California Berkeley

Slides
Tutorials: Galaxy101, RNA-seq

Jeremy Goecks, Jennifer Jackson

October 28 - November 2

Genomic Virtual Laboratory Workshop

eResearch Australasia, Sydney, Australia

Enis Afgan

October 21-24

RNA seq using Galaxy

International Mammalian Genome Conference (IMGC 2012), St. Pete Beach, Florida, United States

Slides

October 18-30

Advanced Sequencing Technologies and Applications Course

Cold Spring Harbor Laboratory, New York, United States

Anton Nekrutenko

October 22

Introduction to Galaxy Workshop

Purdue University

Slides

Dave Clements

October 19

Transparent, Accessible, Reproducible Biological Analysis with Galaxy

Indiana University

Slides

Dave Clements

October 16-17

Introduction to Galaxy Workshop

University of Illinois at Urbana-Champaign

Slides

Dave Clements

October 15-17

Advanced NGS Course: RNA-seq data analysis

Amsterdam Medical Centre (AMC), The Netherlands

Patrick Koks

October 14-17

Using the Galaxy platform for RNA-Seq data analysis

X-meeting 2012, Sao Paulo, Brazil

Slides

Adhemar Zerlotini Neto, Francisco Pereira Lobo, Felipe Rodrigues da Silva

October 9-11

Tavaxy: A Workflow System with Taverna and Galaxy Capabilities and Cloud Computing Support

Bio-IT World Europe, Vienna, Austria

Mohamed Abouelhoda

October 8-12

Lessons from Galaxy, a Web-based Platform for High-throughput Genomic Analyses

Extending High-Performance Computing Beyond its Traditional User Communities Workshop, part of 8th IEEE International Conference on eScience (eScience 2012), Chicago Illinois, United States

Slides

Jeremy Goecks

October 3

(first Swiss) Galaxy Workshop

SyBIT Tech Day, Bern, Switzerland

Links

Hans-Rudolf Hotz

September 27-29

Informatics Workshop

Beyond the Genome 2012, Harvard Medical School, Boston, Massachusetts

James Taylor

September 18-20

Galaxy - a collaborative tool for High Performance Computing

NORDUnet Conference, Oslo and Akershus University College, Oslo, Norway

Slides

Nikolay Vazov

September 11-14

Automated and reproducible analysis of NGS data (ARANGS12)

Instituto Gulbenkian de Ciência, Oeiras, Portugal

Slides + Exercies

Rutger Vos, Darin London

September 11-13

Facilitating Research on Heart Disease through SaaS

Bio-IT World Cloud Summit, San Francisco, California, United States

Slides

Raimond Winslow

September 10-12

Transparent, accessible, reproducible analysis with Galaxy

South African Genetics & Bioinformatics Society Conference
University of Stellenbosch, Stellenbosch, South Africa

Slides

Dave Clements

Assembling a cassava transcriptome using Galaxy on a high performance computing cluster

Slides

Aobakwe Matshidiso

September 10-11

Systems Bioinformatics Workshop

Institute for Systems Biology
Seattle, Washington, United States

James Taylor

September 3-4

Galaxy Workshop

University of Pretoria, Pretoria, South Africa

Slides

Dave Clements

September 6-7

Stellenbosch University, Stellenbosch, South Africa

August 25-29

2012 GMOD Summer School

US National Evolutionary Synthesis Center (NESCent), Durham, North Carolina, United States

Tutorial

Dave Clements

August 1-3

Bioinformatics Short Course: Mutation Detection Using Massively Parallel Sequencing: From Data Generation to Variant Annotation

University of Iowa, Iowa City, United States

Slides + Video

Iowa Initiative in Human Genetics <iihg AT uiowa DOT edu>

July 25-27

2012 Galaxy Community Conference

University of Illinois Chicago, United States

Program

Dave Clements

July 24-27

Suggestions for Galaxy Workflow Design Using Semantically Annotated Services

FOIS 2012: 7th International Conference on Formal Ontology in Information Systems, Medical University of Graz, Austria

Slides

Jie Zheng

July 19

Introduction to Galaxy OpeniHelix Webinar

Online

OpenHelix

July 13-17

ISMB 2012 and BOSC 2012

Long Beach, California, United States

Galaxy @ ISMB, BOSC

Galaxy Outreach

July 5-6

Atelier Galaxy

Le Centre de Génomique Fonctionnelle Bordeaux

Anton Nekrutenko

June 26

Galaxy: un environnement d'analyses bioinformatiques

l'Institut de Biologie de Lille, France

Sophie Gallina

June 11-12

Informatics on High Throughput Sequencing Data Workshop

Toronto, Ontario, Canada

Francis Ouellette

June 6-8

Dynamically Scalable, Accessible Analysis with Galaxy Cloud

Bio-IT World Asia, Singapore

James Taylor

May 30 - June 2

A Galaxy-integrated framework using network graphs to exploit multidimensional data from disparate "Omics" sources for creating/exploiting functional genomics gene sets across multiple species

Arthopod Genomics Symposium, Kansas City, Missouri, United States

Augustine Dunn

May 28 - June 1

Galaxy Tour de France 2012

Perpignan, Montpellier, Lyon, Paris

Nate Coraor, Anton Nekrutenko, JamesTaylor

May 23-25

Opening new gateways to workflows for life scientists

IWSG-Life 2012, Amsterdam, The Netherlands

Slides

Konstantinos Karasavvas

May 17-18

Expression Dynamics of Human XBP1 Revealed using an Integrative Approach (and Galaxy), talk,

WiNGS, The Workshop in Next-Generation Sequence Analysis!, UNC Charlotte, North Carolina, United States

Slides

Jeremy Goecks

Workflows and Galaxy, workshop

Slides

May 15-17

RNA-Seq Approach to Study Gene Expression Profiles in Non-Model Organisms

Great Lakes Bioinformatics Conference 2012 (GLBIO), Ann Arbor, Michigan, United States

Slides

Asela Wijeratne, Saranga Wijeratne, Tea Meulia

May 8-12

Staying on top of evolving best practices with Galaxy, Poster

The Biology of Genomes, Cold Spring Harbor Laboratory, New York, United States

Dan Blankenberg

GMOD in the Cloud

Poster

Scott Cain

Integrative venomics reveals different infection strategies for parasitic wasps, poster

Jeremy Goecks

April 29- May 1

The Genome Access Course

Cold Spring Harbor Laboratory, New York, United States

Assaf Gordon

April 24-26

Leveraging SaaS for Next-Gen Sequencing: Case Study with the Galaxy Community
Pre-Conference Workshop

Bio-IT World, Boston, Massachusetts, United States

Ravi Madduri, Elizabeth Bartom

April 24-25

Galaxy CloudMan on the SARA HPC Cloud, live demo

Netherlands Bioinformatics Conference 2012 (NBIC 2012), Lunteren, the Netherlands

Poster: Big, A4

Mattias de Hollander

Provenance in Galaxy
Provenance information in bioinformatics workshop

Radek Szklarczyk

April 20

Introduction to Galaxy

Iowa State University

Slides

DaveClements

April 19

Introduction to Galaxy

University of Iowa

Slides

DaveClements, Ann Black-Ziegelbein

April 12-13

Introduction to Galaxy

Johns Hopkins University

Slides

DaveClements

April 11

Introduction to Galaxy

University of Maryland

Slides

DaveClements

April 5-6

April 2012 GMOD Meeting
Including a Galaxy Workshop on evening of April 5

Washington DC, immediately following Biocuration 2012

Project Update, CloudMan Workshop, Community Building lightning talk

Dave Clements

April 4-5

NBIC NGS Exome Sequencing & Variant Calling course
Including a session on Read Mapping and Variant Calling with Galaxy

Radboud UMC, Nijmegen

Hailiang "Leon" Mei

April 3

Galaxy Bioinformatics Workflow Environment

Hogeschool Leiden, Leiden, the Netherlands

slides

Rutger Vos

January 26

今回の講習会では,「Next-Generation Sequencer(NGS) 微生物解析と Galaxy ツール」を中心に講義と実習を行ないます。講義内容をよりよく理解して 頂くために,PC を使用した実習を行ないます。
(Next-Generation Sequencing (NGS) and microbiological analysis with Galaxy)

DNA Data Bank of Japan (DDBJ), National Institute of Genetics

DDBJ

January 8-21

2012 Workshop on Genomics
Features Galaxy and much more.

Český Krumlov, Czech Republic

James Taylor

January 14-18

Galaxy Session @ GMOD Workshop,
The Galaxy Platform: Running Analyses in the Cloud @ Cloud Computing Session
... Plus at least 4 more talks and posters

PAG 2012, San Diego, California, United States

All talks

Dave Clements
Dannon Baker

January 17

Reproducible workflows for next generation sequencing analysis

Nowgen, University of Manchester, United Kingdom

Tom Hancocks

2011

Date

Topic/Event

Location

Links

Contact

November 21-25

Galaxy Workflow System CIBA Course

Embrapa, Brazil

Felipe da Silva

November 14-15

Using Galaxy to provide an NGS Analysis Platform
as part of the Data Analysis, Management and Storage Strategies Session

Next Generation Sequencing Congress 2011, London, United Kingdom

Slides

Hans-Rudolf Hotz

November 9-15

Compuational & Comparative Genomics Course
Features Galaxy and much more.

Cold Spring Harbor Laboratory, New York, United States

James Taylor

November 8-21

Advanced Sequencing Technologies & Applications Course
Features Galaxy and much more.

Cold Spring Harbor Laboratory, New York, United States

James Taylor

November 2-5

Best practices for variant discovery through Galaxy: Oscillating evolution within dual coding genes

Genome Informatics 2011, Cold Spring Harbor, New York, United States

Dan Blankenberg

October 27

Advanced Analysis: Galaxy

pharMAseng, University Hassan II Mohammedia-Casablanca & FST Mohammedia, Morocco

OpenHelix

October 25

Exploit your Data: Galaxy and the GMOD Tool Suite
This workshop will both cover Galaxy and provide an overview of the GMOD tool suite.

University of Tasmania, Hobart, Australia

Slides

Dave Clements

October 23-24

The Galaxy Track Browser: Transforming the Genome Browser from Visualization Tool to Analysis Tool

BioVis 2011, Providence, Rhode Island, United States

Slides

Jeremy Goecks

October 12-14

Galaxy Update and Galaxy Workshop
The workshop will cover an introduction to Galaxy, including analyzing data with tools and visualizations, using Galaxy in the cloud, and running your own instance and adding new tools.

October 2011 GMOD Meeting, Ontario Institute for Cancer Research (OICR), Toronto, Canada

Talk slides, Workshop slides

Dan Blankenberg

October 9-12

Exploit your Data: Galaxy and the GMOD Tool Suite
This workshop will both cover Galaxy and provide an overview of the GMOD tool suite. This workshop is sponsored by CSIRO and AMATA.

AMATA 2011, Canberra, Australia

Slides

Dave Clements

October 3-7

Workshop on Genomics
Includes the half-day
Galaxy: Introduction and Introductory Laboratory session

Smithsonian Institution, Washington, DC, United States

Slides

Anton Nekrutenko

September 22

Developing distributed analysis pipelines with shared community resources using CloudBioLinux and Cloudman

AWS Genomics Event, Seattle, Washington, United States

Slides

Brad Chapman

September 20

Large-Scale Data Movement and High-Throughput Analysis in the Cloud: Case Study with Galaxy Community

Bio-IT Cloud Summit, La Jolla, California, United States

Slides

Ravi Madduri

September 19-22

Transparent, accessible, reproducible analysis with Galaxy

Genome Informatics Workshop @ Beyond the Genome 2011, Washington DC, United States

Slides

James Taylor

September 19

Galaxy for high-throughput NGS analysis

MipTec, Next Generation Sequencing for Research and Clinical Genomics User Group, Basel, Switzerland

Slides

Dan Blankenberg

September 12-20

Bioinformatics and Cloud Computing Courses 2011
This will use Galaxy as a platform throughout the course.

UC Davis, Davis California, United States

Slides

Dawei Lin

September 15-16

Galaxy: A Web-based Platform for Accessible, Reproducible, and Transparent High-throughput Biology and Galaxy Workshop

UAB Research Computing Day, Birmingham, Alabama, United States

Talk slides

Jeremy Goecks

July 10-23

Workshop on Comparative Genomics North America
Includes a day long Galaxy session

Fort Collins, Colorado, United States

Slides

Dan Blankenberg

July 17-22

Accessible, Transparent, Reproducible Data Analysis with Galaxy
TeraGrid'11

Salt Lake City, Utah, United States

Slides

James Taylor

July 15-19

BOSC, 3DSIG, and ISMB / ECCB 2011
Including over 15 talks, workshops and posters related to Galaxy.

Vienna, Austria

Slides

Galaxy Outreach

June 23-24

Galaxy Workshops @ USC

Los Angeles, California, United States

Intro talk slides, NGS analyses slides, ISI seminar slides

Jeremy Goecks

June 22

Bioinformatics Workshop

Mouse Genetics 2011, Washington, DC, United States

Carol Bult, Deanna Church

June 9-12

Arthropod Genomics Symposium
Genome Project 101 Workshop

Kansas City, Missouri, United States

Workshop page

Dave Clements

May 28-31

European Human Genetics Conference 2011 (ESHG)
Galaxy Workshop

Amsterdam, the Netherlands

Slides

Dave Clements

May 25-26

2011 Galaxy Community Conference
Two full days of Galaxy

Lunteren, the Netherlands

Slides, videos

Galaxy Outreach

May 20

Using Galaxy Workshop

University of Manchester, United Kingdom

Slides

Dan Blankenberg

April 13-14

NBIC Galaxy Hackathon

Belgium/Netherlands

NBIC

April 12-14

Dynamically Scalable, Accessible Analysis for High-Throughput Sequence Data
BioIT World

Boston, Massachusetts, United States

Slides

Enis Afgan

March 5-12

GMOD Americas 2011
Talk and course session

Durham, North Carolina, United States

Slides

Dave Clements

February 19-22

Galaxy Next Generation Sequencing Functionality from Sample Tracking to SNP Calling
ABRF 2011

San Antonio, Texas, United States

Slides

Greg von Kuster

February 2-5

Management and Analysis of Second and Third Generation Sequencing Data with Galaxy
AGBT 2011

Marco Island, Florida, United States

Slides

Anton Nekrutenko, James Taylor

January 15-19

Galaxy: Analyze, Visualize, Communicate
Plant and Animal Genome XIX (PAG 2011)

San Diego, California, United States

Slides

Dan Blankenberg

January 9-21

Workshop on Comparative Genomics, Europe
Includes sessions on Galaxy

Český Krumlov, Czech Republic

Slides

Anton Nekrutenko

2010

Date

Topic/Event

Location

Links

Contact

November 3-9

Computational and Comparative Genomics
Course includes material on Galaxy

Cold Spring Harbor, New York, United States

William Pearson

November 3-4

UCSC Genome Browser and Galaxy Workshops
American Society of Human Genetics (ASHG)

Washington, DC, United States

Robert Kuhn

November 2

World Tour of Genome Browsers and Galaxy of Analysis Tools
Pre-ASHG workshop put on by OpenHelix

Washington, DC, United States

OpenHelix

October 11-13

The elastic analysis with galaxy on the cloud

Beyond the Genome, Boston, Massachusetts

Enis Afgan

July 9-13

Galaxy: Analyze, Visualize, Communicate
ISMB 2010

Boston, Massachusetts, United States

July 9-10

Deploying Galaxy on the Cloud BOSC 2010

Boston, Massachusetts, United States

Slides

Enis Afgan

May 15-16

Galaxy Developer Conference 2010

Cold Spring Harbor, New York, United States

January 9-13

Animal Genomics with Galaxy: Analyze, Publish, and Visualize
Plant and Animal Genome XVIII (PAG 2010)

San Diego, California, United States

Slides

Dan Blankenberg