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GCC BOSC 2018 has ended
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.

avatar for Arthur Eschenlauer

Arthur Eschenlauer

University of Minnesota
Researcher 5
Twin Cities, MN
https://experts.umn.edu/en/persons/art-eschenlauer
https://orcid.org/0000-0002-2882-0508

Art has a Ph.D. in Biochemistry and twenty years experience in the business community supporting Windows and Linux systems and software. Since his return to academia, Art has created tools and developed workflows for proteomic and metabolomic analysis of LC-MS data in Galaxy.


Wednesday, June 27
 

9:01am PDT

Keynote: Fernando Pérez--"Sustainable development of scientific open source tools: a view from Jupyter" Vollum Lecture HallFernando Pérez

10:00am PDT

The journey of a team of engineers in learning packaging technology Vollum Lecture HallPatrick Durand • Valentin Marcon • Laure Quintric

10:50am PDT

GCC Session 2: Galaxy Infrastructure Eliot ChapelSimon Gladman

10:51am PDT

Storage Media Federation for Galaxy Eliot ChapelVahid Jalili

11:10am PDT

From laptop to super-computer: standardizing installation and management of Galaxy Eliot ChapelNuwan Goonesekera

11:30am PDT

Testing Wide-Area Lustre File Systems for Sharing load in Galaxy Eliot ChapelCarrie Ganote

11:50am PDT

Galaxy for AnswerALS on Microsoft Azure and Kubernetes Eliot ChapelRC Carter Lightning Talks ⚡ Eliot Chapel

11:56am PDT

Adding Python 3 support to Galaxy: a status report Eliot ChapelNicola Soranzo

12:02pm PDT

Aurora Galaxy Tools: Using R Markdown as a framework to build interactive Galaxy tool output reports Eliot ChapelMing Chen

1:40pm PDT

GCC Session 3: Challenges & Opportunities Eliot ChapelJeremy Goecks

1:41pm PDT

Galaksio, a more user friendly interface for Galaxy using workflows Eliot ChapelTomas Klingström

2:00pm PDT

Large scale analyses with improved dataset collections Eliot ChapelMarius van den Beek

2:20pm PDT

A fruitful year for the Galaxy Training materials Eliot ChapelBérénice Batut

2:40pm PDT

The usegalaxy.* servers: democratizing computational resources for life sciences at a new level Eliot ChapelSimon Gladman

3:01pm PDT

D01: From laptop to super-computer: standardizing installation and management of Galaxy PAB AtriumNuwan Goonesekera D03: Aurora Galaxy Tools: Using R Markdown as a framework to build interactive Galaxy tool output reports PAB AtriumMing Chen G01: Galaxy-E, a first stage towards collaborative data analysis by citizens PAB AtriumYvan Le Bras G05: Galaksio, a more user friendly interface for Galaxy using workflows PAB AtriumTomas Klingström G13: Bacterial genomics in Galaxy PAB AtriumDelphine Lariviere G15: Galaxy in a proteomics core facility PAB AtriumJeremy Volkening G17: Evaluation of moFF and FlashLFQ for label-free peptide quantification in proteomic workflows within the Galaxy-P framework PAB AtriumSubina Mehta G19: Implementation of machine learning algorithms for medulloblastoma classification in a local galaxy server PAB AtriumLuciane Sussuchi Da Silva G25: VKMZ: Visualizing Metabolomics on a van Krevelen Diagram through Galaxy PAB AtriumMark Esler G33: Refinery: a data management, analysis, and visualization platform utilizing the Galaxy workbench PAB AtriumScott Ouellette

4:20pm PDT

Panel: Training and Documentation in Bioinformatics Vollum Lecture HallBrad Chapman • Bérénice Batut • Fernando Pérez • Tracy K. Teal • Jason Williams
 
Thursday, June 28
 

9:00am PDT

GCC Session 5: Galaxy in situ Eliot ChapelLaure Quintric

9:40am PDT

Canada's Integrated Rapid Infectious Disease Analysis Platform (IRIDA) Eliot ChapelThomas Matthews

10:00am PDT

Galaxy in a proteomics core facility Eliot ChapelJeremy Volkening

10:50am PDT

GCC Session 6: Galaxy in situ Eliot ChapelMaria Doyle

10:51am PDT

Quantifying Functional Microbiomes: An integrated, quantitative metaproteomics approach reveals connections between taxa, function and protein expression in complex microbiomes Eliot ChapelCaleb Easterly • Pratik Jagtap

11:10am PDT

GeneSeqToFamily: a Galaxy workflow to find gene families based on the Ensembl Compara GeneTrees pipeline Eliot ChapelNicola Soranzo

11:30am PDT

Galaxy HiCExplorer: HiCExplorer, deepTools3 and pyGenomeTracks Eliot ChapelJoachim Wolff

11:50am PDT

Lightning Talks ⚡ Eliot Chapel Using Galaxy to analyze TCGA data: the experience of a Brazilian center Eliot ChapelThais Talarico

11:56am PDT

ImmPort Galaxy, facilitating analysis and meta-analysis of flow cytometry data Eliot ChapelCristel Thomas

12:02pm PDT

Coloc-stats: a unified web interface to perform colocalization analysis of genomic features Eliot ChapelSveinung Gundersen

12:30pm PDT

BoF: Standardizing Galaxy deployments PAB 104The Other Enis Afgan • Nuwan Goonesekera

1:40pm PDT

GCC Session 7: Community Update(s) Eliot ChapelFrederik Coppens

1:41pm PDT

Galaxy Community Update Eliot ChapelDaniel 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 ChapelPraveen Kumar Lightning Talks ⚡ Eliot Chapel

2:16pm PDT

A Galaxy Implementation of Next-Generation Clustered Heat Maps for Interactive Exploration of Large-Scale Molecular Profiling Data Eliot ChapelBob Brown

2:46pm PDT

Galaxy-E, a first step towards collaborative data analysis by citizens Eliot ChapelYvan Le Bras

2:52pm PDT

Galaxy2Shiny2Galaxy - Combining Galaxy with Shiny (and doing other bad things) Eliot ChapelHans-Rudolf Hotz

3:01pm PDT

B22: Code is Science: a manifesto for open source code in science PAB AtriumYo Yehudi B36: Understanding reproducibility of bioinformatics workflows PAB AtriumSehrish Kanwal B40: Running portable workflow and container specifications at production scale in the cloud: strategy & best practices PAB AtriumGeet Duggal B42: The GA4GH/DREAM Workflow Execution Challenge PAB AtriumJames Eddy D02: Adding R shiny apps as Galaxy interactive environment. A Galaxy-E demo PAB AtriumValintin Chambon D06: Distributed execution of bioinformatics tools on Apache Spark with ADAM and Cannoli PAB AtriumMichael Heuer G02: Testing Wide-Area Lustre File Systems for Sharing load in Galaxy PAB AtriumCarrie Ganote G06: Galaxy2Shiny2Galaxy - Combining Galaxy with Shiny (and doing other bad things) PAB AtriumHans-Rudolf Hotz G12: Canada's Integrated Rapid Infectious Disease Analysis Platform (IRIDA) PAB AtriumThomas Matthews G18: CRAVAT (Cancer-Related Analysis of Variants Toolkit) integration into Galaxy-P and extension towards proteogenomic studies PAB AtriumRay Sajulga G24: New tools to enhance the Galaxy-based metabolomics workbench PAB AtriumArthur Eschenlauer G26: ISAcreate: a Galaxy tool for Prospective Data Management with ISA format support - Application to Metabolomics Datasets PAB AtriumPhilippe Rocca-Serra G28: EDAM: the ontology of bioinformatics operations, types of data, topics, and data formats (2018 update) PAB AtriumHervé Ménager G32: Results of an Extended Developer Support consultation with the CloudLaunch project PAB AtriumMarcus Christie

4:01pm PDT

Closing Keynote: Confound it! Reproducible biology from "omics" data analysis Vollum Lecture HallLucia Peixoto

5:00pm PDT

Conference Closing Vollum Lecture HallBjorn Gruning • Nomi Harris • Nicole Vasilevsky • Heather Wiencko
 
Friday, June 29
 

9:00am PDT

GCC OBF CollaborationFest: Core Performing Arts BuildingBjorn Gruning • Dannon Baker • Jennifer Hillman-Jackson • Frederik Coppens • Brad Chapman