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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 VIJAY

VIJAY

Genomic Medicine Institute/ Lerner Research Institute CLEVELAND CLINIC FOUNDATION
Postdoctoral fellow
CLEVELAND
Sunday, June 24
 

3:00pm

Conference desk open PAB Atrium
 
Monday, June 25
 

8:00am

Conference desk open PAB Atrium Training Day 1 - Galaxy Performing Arts Building

9:00am

Galaxy 101 - A gentle introduction to using Galaxy PAB 104Bérénice Batut • Joachim Wolff Intro to Galaxy Administration 1 PAB 320Enis Afgan • Marius van den Beek • John Chilton • Nate Coraor • Carrie Ganote • Simon Gladman • Nuwan Goonasekera • Martin Čech

11:30am

Lunch Reed Commons Cafe

12:30pm

Intro to Galaxy Administration 2 PAB 320Enis Afgan • Marius van den Beek • John Chilton • Nate Coraor • Carrie Ganote • Simon Gladman • Nuwan Goonasekera • Martin Čech RNA-Seq Analysis with Galaxy PAB 104Anton Nekrutenko

3:00pm

Break Reed Commons Cafe

3:30pm

Galaxy For Proteogenomics ! PAB 104Tim Griffin • Pratik Jagtap • JJ Johnson • Praveen Kumar • Subina Mehta

6:00pm

Dinner on your own TBA

7:30pm

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

8:00am

Training Day 2 - All topics Reed College Campus

9:00am

Community built analyses that run everywhere with bcbio PAB 332Brad Chapman • Radhika S. Khetani • Lorena Pantano Rubino Conda and Containers PAB 320John Chilton • Björn Grüning • Martin Čech Data Carpentry Genomics Workshop: Data Organization and Automation with Shell I PAB 131Tracy K. Teal Handling integrated biological data using Python (or R) and InterMine PAB 104Daniela Butano • Leyla Ruzicka • Yo Yehudi

12:30pm

Data Carpentry Genomics Workshop: Data Organization and Automation with Shell II PAB 131Tracy K. Teal Practical use of the Galaxy API command line tools Vollum LoungeDannon Baker • Marius van den Beek • Nicola Soranzo

3:30pm

Data Carpentry Genomics Workshop: Data Organization and Automation with Shell III PAB 131Tracy K. Teal GATK4: What's new and how to run it PAB 332Geraldine Van der Auwera • Kate Noblett Setting up for success: Everything you need to know when planning for an RNA-seq analysis II PAB 104Radhika S. Khetani • Meeta Mistry • Mary Piper

6:20pm

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

8:00pm

Joint BOSC & GCC: Opening Session Vollum Lecture HallNicole Vasilevsky • Heather Wiencko

8:10pm

Opening Keynote: Tracy K. Teal--"Democratizing Data" Vollum Lecture HallTracy K. Teal
 
Wednesday, June 27
 

9:00am

Joint BOSC & GCC Session 1 Vollum Lecture Hall

9:01am

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

10:00am

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

10:20am

Break PAB Atrium Sponsors PAB Atrium

11:05am

The Human Cell Atlas Data Coordination Platform: an open source, cloud-based system for ingesting, storing, analyzing, discovering, and exploring single-cell data Vollum Lecture HallBrian O'Connor

11:45am

JASS: a free and open source software for the joint analysis and interactive analysis of GWAS results Vollum Lecture HallHervé Ménager

11:55am

Variant Transforms: Loading VCF files into BigQuery for large scale data analysis Vollum Lecture HallAsha Rostamianfar

12:02pm

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

12:10pm

Lunch, sponsored by Lenovo + Intel PAB Atrium

1:41pm

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

2:00pm

Reproducible big data science: A case study in continuous FAIRness Vollum Lecture HallRavi K. Madduri

2:20pm

InterMine 2.0: More than fifteen years of open biological data integration Vollum Lecture HallYo Yehudi

2:40pm

GRADitude: A computational tool for the analysis of Grad-seq data Vollum Lecture HallSilvia Di Giorgio

2:50pm

Reproducible data analysis with Snakemake Vollum Lecture HallJohannes Köster

3:00pm

Posters & Demos: Odd Numbered PAB Atrium Sponsors PAB Atrium

3:01pm

B15: RyuGoo-Saba: a CWL-based execution engine utilizing cloud resources for big data analysis in life science PAB AtriumHirotaka Suetake G07: Identifying suitable spliced mapper and genomic assembly for variant detection PAB AtriumAkila Parvathy Dharshini G11: Candidate Gene Methylation quantification (CandiMeth) Within the Galaxy Bioinformatics Interface PAB AtriumSara-Jayne Thursby G23: SECIMTools: A suite of Metabolomics Data Analysis Tools PAB AtriumOleksandr Moskalenko

4:00pm

Session 4 - Joint BOSC & GCC Vollum Lecture HallBrad Chapman

5:40pm

Birds-of-a-Feather (BoFs), With Your Dinner! TBA BoF: Educating Funders/PIs on Open Science TBATracy K. Teal • Jason Williams Dinner on your own (or join a BoF) TBA

6:00pm

BOSC & GCC Social Mixer | by Lifebit Woodstock NeighborhoodLifebit

8:00pm

Birds-of-a-Feather (BoFs), wherever you want! TBA
 
Thursday, June 28
 

9:00am

BOSC Session 5: Developer Tools and Libraries Vollum Lecture HallPeter Cock

9:01am

iMADS: A sustainable software collaboration for predicting transcription factor binding specificity Vollum Lecture HallDan Leehr

10:00am

Galaxy in a proteomics core facility Eliot ChapelJeremy Volkening

10:20am

Break PAB Atrium Sponsors PAB Atrium

10:51am

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

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

11:30am

Galaxy HiCExplorer: HiCExplorer, deepTools3 and pyGenomeTracks Eliot ChapelJoachim Wolff

12:10pm

Lunch PAB Atrium

12:30pm

Birds-of-a-Feather (BoFs), with Lunch! Performing Arts Building BoF: Preparing for the next steps in AI PAB 131Kathy Wilson

2:10pm

Integrative proteo-transcriptomics workflows within the Galaxy framework to explore the correlation between the expression of RNA and proteins Eliot ChapelPraveen Kumar

2:16pm

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

2:22pm

Candidate Gene Methylation quantification (CandiMeth) Within the Galaxy Bioinformatics Interface Eliot ChapelSara-Jayne Thursby

2:28pm

Making Immune Repertoire Sequence Analysis Accessible to Anyone via Galaxy Eliot ChapelBradley W. Langhorst

3:01pm

B04: TreeGenes: enabling visualization and analysis in forest tree genomics PAB AtriumEmily Grau B08: GRADitude: A computational tool for the analysis of Grad-seq data PAB AtriumSilvia Di Giorgio B20: Reproducible data analysis with Snakemake PAB AtriumJohannes Köster D04: A Galaxy Implementation of Next-Generation Clustered Heat Maps for Interactive Exploration of Large-Scale Molecular Profiling Data PAB AtriumBob Brown G08: Collecting data for association genetics: Tripal Plant PopGen Submit pipeline PAB AtriumPeter Richter G10: Coloc-stats: a unified web interface to perform colocalization analysis of genomic features PAB AtriumSveinung Gundersen G24: New tools to enhance the Galaxy-based metabolomics workbench PAB AtriumArthur Eschenlauer G28: EDAM: the ontology of bioinformatics operations, types of data, topics, and data formats (2018 update) PAB AtriumHervé Ménager

4:01pm

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

5:40pm

Birds-of-a-Feather (BoFs), the Final Flight! Performing Arts Building
 
Friday, June 29
 

9:00am

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

9:00am

GCC OBF CollaborationFest: Core Performing Arts Building
 
Sunday, July 1
 

9:00am

GCC OBF CollaborationFest: Encore Performing Arts Building
 
Monday, July 2
 

9:00am

GCC OBF CollaborationFest: Encore Performing Arts Building