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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 Philip Mabon

Philip Mabon

Public Health Agency of Canada
Senior Bioinformatician
Monday, June 25
 

8:00am PDT

Conference desk open PAB Atrium

12:30pm PDT

Intro to Galaxy Administration 2 PAB 320The Other Enis Afgan • Marius van den Beek • John Chilton • Nate Coraor • Carrie Ganote • Simon Gladman • Nuwan Goonesekera • Martin Čech

3:00pm PDT

Break Reed Commons Cafe

3:30pm PDT

Intro to Galaxy Administration 3 PAB 320The Other Enis Afgan • Marius van den Beek • John Chilton • Nate Coraor • Carrie Ganote • Simon Gladman • Nuwan Goonesekera • Martin Čech

6:00pm PDT

Dinner on your own TBA

7:30pm PDT

Bioinformatics Training and Education with the Galaxy Training Network PAB 320Bérénice Batut
 
Tuesday, June 26
 

8:00am PDT

Training Day 2 - All topics Reed College Campus

9:00am PDT

Conda and Containers PAB 320John Chilton • Bjorn Gruning • Martin Čech

11:30am PDT

Lunch Reed Commons Cafe

12:30pm PDT

Galaxy Interactive Environments PAB 332Bjorn Gruning

3:00pm PDT

Break PAB Atrium

3:30pm PDT

Command line workflow management systems: Snakemake and Nextflow Vollum LoungeJohannes Köster • Paolo Di Tommaso

6:20pm PDT

Birds-of-a-Feather (BoFs), With Your Dinner! TBA

8:00pm PDT

Joint BOSC & GCC: Opening Session Vollum Lecture HallNicole Vasilevsky • Heather Wiencko Opening & Welcome Vollum Lecture HallDave Clements • Nomi Harris

8:10pm PDT

Opening Keynote: Tracy K. Teal--"Democratizing Data" Vollum Lecture HallTracy 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 HallFernando Pérez

10:00am PDT

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

10:20am PDT

Break PAB Atrium

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

12:10pm PDT

Lunch, sponsored by Lenovo + Intel PAB Atrium

12:30pm PDT

Birds-of-a-Feather (BoFs), with Lunch! Performing Arts Building

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

2:45pm PDT

NIH Data Commons Pilot Phase leverages the cloud to access, analyze, and share FAIR biomedical data Vollum Lecture HallDavid Siedzik

2:50pm PDT

Reproducible data analysis with Snakemake Vollum Lecture HallJohannes Köster

3:01pm PDT

B11: flowDashboard: An Interactive Dashboard for Comparative Flow Analysis PAB AtriumTed Laderas B19: Reproducible big data science: A case study in continuous FAIRness PAB AtriumRavi K. Madduri B21: FAIRsharing: Working with the community to map the landscape of standards, databases and data policies PAB AtriumMassimiliano Izzo B23: Oxidizing Python: writing extensions in Rust PAB AtriumLuiz Carlos Irber Junior 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 G03: Predicting Galaxy Tool Runtimes with Random Forests PAB AtriumAnastasia Tyryshkina G05: Galaksio, a more user friendly interface for Galaxy using workflows PAB AtriumTomas Klingström G09: EWAS-Galaxy: a tool suite for population epigenetics integrated into the Galaxy PAB AtriumKrzysztof Poterlowicz G13: Bacterial genomics in Galaxy PAB AtriumDelphine Lariviere G31: A fruitful year for the Galaxy Training materials PAB AtriumBérénice Batut G33: Refinery: a data management, analysis, and visualization platform utilizing the Galaxy workbench PAB AtriumScott Ouellette

4:00pm PDT

Session 4 - Joint BOSC & GCC Vollum Lecture HallBrad Chapman

4:01pm PDT

Improving the Bioinformatics Curriculum Vollum Lecture HallJason Williams

4:20pm PDT

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

5:40pm PDT

BoF: Sharing and Leveraging Galaxy Tool Execution Data TBAMartin Čech • Anastasia Tyryshkina BoF: Using Galaxy in bioinformatics support infrastructures Reed Commons CafeTomas Klingström Dinner on your own (or join a BoF) TBA

6:00pm PDT

BOSC & GCC Social Mixer | by Lifebit Woodstock NeighborhoodLifebit

8:00pm PDT

BoF: Nextflow Gathering Sitka Dorm, Ground FloorEvan Floden
 
Thursday, June 28
 

9:01am PDT

Galaxy Enables Integrated Analysis of Phenotypic, Genotypic, and Environmental Data for Geo-referenced Trees in CartograTree Eliot ChapelNic Herndon

9:40am PDT

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

9:45am PDT

Extended Extraction Transform Load: A novel framework for batch jobs on cloud computing resources Vollum Lecture HallHiromu Ochiai

10:20am PDT

Break PAB Atrium

11:10am PDT

Running portable workflow and container specifications at production scale in the cloud: strategy & best practices Vollum Lecture HallGeet Duggal

11:35am PDT

Bespin: An open source system to run reproducible computational workflows on cloud infrastructure Vollum Lecture HallJohn Bradley

11:45am PDT

Scaling bioinformatics analysis using Nextflow and AWS Vollum Lecture HallFrancesco Strozzi

11:50am PDT

One Week to 1,000 Whole Genomes with Open Source: Arvados, CWL, and bcbio Vollum Lecture HallPeter Amstutz

12:10pm PDT

Lunch PAB Atrium

12:30pm PDT

BoF: Common Workflow Language community chat PAB 332John Chilton • Michael R. Crusoe • Hervé Ménager • Jeff Gentry • Peter Amstutz BoF: Standardizing Galaxy deployments PAB 104The Other Enis Afgan • Nuwan Goonesekera

1:40pm PDT

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

1:50pm PDT

GSOC update Vollum Lecture HallMichael R. Crusoe

2:00pm PDT

Biopython Project Update 2018 Vollum Lecture HallPeter Cock

3:01pm PDT

D02: Adding R shiny apps as Galaxy interactive environment. A Galaxy-E demo PAB AtriumValintin Chambon G12: Canada's Integrated Rapid Infectious Disease Analysis Platform (IRIDA) PAB AtriumThomas Matthews

5:00pm PDT

Conference Closing Vollum Lecture HallBjorn Gruning • Nomi Harris • Nicole Vasilevsky • Heather Wiencko

7:00pm PDT

Conference Dinner Sponsored by Google Cloud TBA
 
Friday, June 29
 

9:00am PDT

GCC OBF CollaborationFest: Core Performing Arts BuildingBjorn Gruning • Dannon Baker • Jennifer Hillman-Jackson • Frederik Coppens • Brad Chapman
 
Saturday, June 30
 

9:00am PDT

GCC OBF CollaborationFest: Core Performing Arts Building