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GCC BOSC 2018
The
2018 Galaxy Community Conference (GCC2018)
and
Bioinformatics Open Source Conference 2018 (BOSC2018)
are meeting together in
Portland, Oregon
, United States, June 25-30, 2018. There will be
two days of training
, a
two+ day meeting
, and
four days of intense collaboration
. The meeting features
joint & parallel sessions
,
shared keynotes
,
poster & demo
sessions,
birds-of-a-feather
, and social events. GCCBOSC is organized by
Oregon Health & Science University
and will be at
Reed College
.
Videos:
BOSC
,
GCC
; and
Program PDF
Registration
,
lodging
and
childcare
information
Sponsorships
,
BoFs
,
Frequently Asked Questions (FAQ)
,
#GCCBOSC
/
Chat
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A. Training
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Break / Social / Networking
Help
Session
B. Conference
All
Birds-of-a-Feather
Break / Social / Networking
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Posters + Demos
Session
Sponsor
Talk
B.b Conference - BOSC
All
Lightning
Session
Talk
B.g Conference - GCC
All
Lightning
Session
Talk
C. CollaborationFest
All
Birds-of-a-Feather
Help
Yvan Le Bras
French National Museum of Natural History
Research engineer
Concarneau, FRANCE
Tuesday
, June 26
6:20pm PDT
BoF: Galaxy for proteomics interest group
Reed Commons Cafe
Tim Griffin • Pratik Jagtap
8:00pm PDT
Joint BOSC & GCC: Opening Session
Vollum Lecture Hall
Nicole Vasilevsky • Heather Wiencko
Opening & Welcome
Vollum Lecture Hall
Dave Clements • Nomi Harris
8:10pm PDT
Opening Keynote: Tracy K. Teal--"Democratizing Data"
Vollum Lecture Hall
Tracy K. Teal
Wednesday
, June 27
9:00am PDT
Joint BOSC & GCC Session 1
Vollum Lecture Hall
9:01am PDT
Keynote: Fernando Pérez--"Sustainable development of scientific open source tools: a view from Jupyter"
Vollum Lecture Hall
Fernando Pérez
10:00am PDT
The journey of a team of engineers in learning packaging technology
Vollum Lecture Hall
Patrick Durand • Valentin Marcon • Laure Quintric
10:20am PDT
Break
PAB Atrium
10:50am PDT
GCC Session 2: Galaxy Infrastructure
Eliot Chapel
Simon Gladman
10:51am PDT
Storage Media Federation for Galaxy
Eliot Chapel
Vahid Jalili
11:10am PDT
From laptop to super-computer: standardizing installation and management of Galaxy
Eliot Chapel
Nuwan Goonesekera
11:30am PDT
Testing Wide-Area Lustre File Systems for Sharing load in Galaxy
Eliot Chapel
Carrie Ganote
11:50am PDT
Galaxy for AnswerALS on Microsoft Azure and Kubernetes
Eliot Chapel
RC Carter
11:56am PDT
Adding Python 3 support to Galaxy: a status report
Eliot Chapel
Nicola Soranzo
12:02pm PDT
Aurora Galaxy Tools: Using R Markdown as a framework to build interactive Galaxy tool output reports
Eliot Chapel
Ming Chen
1:40pm PDT
GCC Session 3: Challenges & Opportunities
Eliot Chapel
Jeremy Goecks
1:41pm PDT
Galaksio, a more user friendly interface for Galaxy using workflows
Eliot Chapel
Tomas Klingström
2:00pm PDT
Reproducible big data science: A case study in continuous FAIRness
Vollum Lecture Hall
Ravi K. Madduri
2:20pm PDT
A fruitful year for the Galaxy Training materials
Eliot Chapel
Bérénice Batut
2:40pm PDT
The usegalaxy.* servers: democratizing computational resources for life sciences at a new level
Eliot Chapel
Simon Gladman
3:01pm PDT
B01: Association Mapping and Landscape Genomics of Georeferenced Forest Trees via CartograTree and TreeGenes
PAB Atrium
Taylor Falk
B05: One Week to 1,000 Whole Genomes with Open Source: Arvados, CWL, and bcbio
PAB Atrium
Peter Amstutz
B11: flowDashboard: An Interactive Dashboard for Comparative Flow Analysis
PAB Atrium
Ted Laderas
B13: READemption - from reads to knowledge
PAB Atrium
Till Sauerwein
B19: Reproducible big data science: A case study in continuous FAIRness
PAB Atrium
Ravi K. Madduri
B21: FAIRsharing: Working with the community to map the landscape of standards, databases and data policies
PAB Atrium
Massimiliano Izzo
B25: The GTrack ecosystem: expressive file formats for genomic track data and metadata - through compilation, exchange, storage and analysis
PAB Atrium
Sveinung Gundersen
B27: JASS: a free and open source software for the joint analysis and interactive analysis of GWAS results
PAB Atrium
Hervé Ménager
B33: BioThings Hub: An API Gateway for Biomedical Knowledge
PAB Atrium
Sébastien Lelong
B43: CWLProv - Interoperable retrospective provenance capture and its challenges
PAB Atrium
Farah Zaib Khan
D01: From laptop to super-computer: standardizing installation and management of Galaxy
PAB Atrium
Nuwan Goonesekera
D03: Aurora Galaxy Tools: Using R Markdown as a framework to build interactive Galaxy tool output reports
PAB Atrium
Ming Chen
G01: Galaxy-E, a first stage towards collaborative data analysis by citizens
PAB Atrium
Yvan Le Bras
G03: Predicting Galaxy Tool Runtimes with Random Forests
PAB Atrium
Anastasia Tyryshkina
G05: Galaksio, a more user friendly interface for Galaxy using workflows
PAB Atrium
Tomas Klingström
G09: EWAS-Galaxy: a tool suite for population epigenetics integrated into the Galaxy
PAB Atrium
Krzysztof Poterlowicz
G13: Bacterial genomics in Galaxy
PAB Atrium
Delphine Lariviere
G15: Galaxy in a proteomics core facility
PAB Atrium
Jeremy Volkening
G17: Evaluation of moFF and FlashLFQ for label-free peptide quantification in proteomic workflows within the Galaxy-P framework
PAB Atrium
Subina Mehta
G19: Implementation of machine learning algorithms for medulloblastoma classification in a local galaxy server
PAB Atrium
Luciane Sussuchi Da Silva
G23: SECIMTools: A suite of Metabolomics Data Analysis Tools
PAB Atrium
Oleksandr Moskalenko
G25: VKMZ: Visualizing Metabolomics on a van Krevelen Diagram through Galaxy
PAB Atrium
Mark Esler
G33: Refinery: a data management, analysis, and visualization platform utilizing the Galaxy workbench
PAB Atrium
Scott Ouellette
4:01pm PDT
Improving the Bioinformatics Curriculum
Vollum Lecture Hall
Jason Williams
4:20pm PDT
Panel: Training and Documentation in Bioinformatics
Vollum Lecture Hall
Brad Chapman • Bérénice Batut • Fernando Pérez • Tracy K. Teal • Jason Williams
5:40pm PDT
BoF: Using Galaxy in bioinformatics support infrastructures
Reed Commons Cafe
Tomas Klingström
6:00pm PDT
BOSC & GCC Social Mixer | by Lifebit
Woodstock Neighborhood
Lifebit
Thursday
, June 28
9:00am PDT
GCC Session 5: Galaxy in situ
Eliot Chapel
Laure Quintric
9:01am PDT
Galaxy Enables Integrated Analysis of Phenotypic, Genotypic, and Environmental Data for Geo-referenced Trees in CartograTree
Eliot Chapel
Nic Herndon
9:20am PDT
G-OnRamp: Create UCSC Assembly Hubs and JBrowse/Apollo Archives for Collaborative Eukaryotic Genome Annotations
Eliot Chapel
Luke Sargent
9:40am PDT
Canada's Integrated Rapid Infectious Disease Analysis Platform (IRIDA)
Eliot Chapel
Thomas Matthews
10:00am PDT
Galaxy in a proteomics core facility
Eliot Chapel
Jeremy Volkening
10:20am PDT
Break
PAB Atrium
10:51am PDT
Quantifying Functional Microbiomes: An integrated, quantitative metaproteomics approach reveals connections between taxa, function and protein expression in complex microbiomes
Eliot Chapel
Caleb Easterly • Pratik Jagtap
11:10am PDT
GeneSeqToFamily: a Galaxy workflow to find gene families based on the Ensembl Compara GeneTrees pipeline
Eliot Chapel
Nicola Soranzo
11:30am PDT
The GA4GH/DREAM Workflow Execution Challenge
Vollum Lecture Hall
James Eddy
Galaxy HiCExplorer: HiCExplorer, deepTools3 and pyGenomeTracks
Eliot Chapel
Joachim Wolff
11:50am PDT
Using Galaxy to analyze TCGA data: the experience of a Brazilian center
Eliot Chapel
Thais Talarico
11:56am PDT
ImmPort Galaxy, facilitating analysis and meta-analysis of flow cytometry data
Eliot Chapel
Cristel Thomas
12:02pm PDT
Coloc-stats: a unified web interface to perform colocalization analysis of genomic features
Eliot Chapel
Sveinung Gundersen
12:10pm PDT
Lunch
PAB Atrium
12:30pm PDT
BoF: Galaxy Training Material: Let's improve the contributions!
PAB 130
Bérénice Batut
1:40pm PDT
GCC Session 7: Community Update(s)
Eliot Chapel
Frederik Coppens
1:41pm PDT
Galaxy Community Update
Eliot Chapel
Dan Blankenberg • Jeremy Goecks • Anton Nekrutenko • James Taylor
2:10pm PDT
Integrative proteo-transcriptomics workflows within the Galaxy framework to explore the correlation between the expression of RNA and proteins
Eliot Chapel
Praveen Kumar
2:16pm PDT
A Galaxy Implementation of Next-Generation Clustered Heat Maps for Interactive Exploration of Large-Scale Molecular Profiling Data
Eliot Chapel
Bob Brown
2:22pm PDT
Candidate Gene Methylation quantification (CandiMeth) Within the Galaxy Bioinformatics Interface
Eliot Chapel
Sara-Jayne Thursby
2:28pm PDT
Making Immune Repertoire Sequence Analysis Accessible to Anyone via Galaxy
Eliot Chapel
Brad Langhost
2:34pm PDT
Galaxy Genome Annotation project: integrating Galaxy and GMOD for genome annotation
Eliot Chapel
Anthony Bretaudeau
2:40pm PDT
OrthoQuery: A Tripal Module to Assess Gene Family Evolution in Sequenced Gymnosperms
Eliot Chapel
Sumaira Zaman
2:46pm PDT
Galaxy-E, a first step towards collaborative data analysis by citizens
Eliot Chapel
Yvan Le Bras
2:52pm PDT
Galaxy2Shiny2Galaxy - Combining Galaxy with Shiny (and doing other bad things)
Eliot Chapel
Hans-Rudolf Hotz
3:01pm PDT
D02: Adding R shiny apps as Galaxy interactive environment. A Galaxy-E demo
PAB Atrium
Valintin Chambon
Friday
, June 29
9:00am PDT
GCC OBF CollaborationFest: Core
Performing Arts Building
Björn Grüning • Dannon Baker • Jennifer Hillman-Jackson • Frederik Coppens • Brad Chapman
Saturday
, June 30
9:00am PDT
GCC OBF CollaborationFest: Core
Performing Arts Building
Timezone
GCC BOSC 2018
America/Los Angeles
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Southeast Reed College Place, Portland, Oregon, United States
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Reed College Campus
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Sitka Dorm, Ground Floor
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