BOSC 2016 Schedule

The full program including abstracts will be available soon.

Sponsors

We are grateful to Curoverse (the team behind the open source platform Arvados) as returning sponsors for BOSC 2016,

Pre-BOSC: Codefest 2016

The Codefest (a pre-BOSC hackathon) takes place July 6-7 in Orlando at FamiLAB. It is FREE and open to all (even if you're not attending BOSC). See Codefest 2016 for details.

BOSC Day 1 (Friday, July 8, 2016)

Time	Title	Speaker or Session Chair
7:30-9:00	Registration
9:00-9:15	Introduction and Welcome	Nomi Harris and Peter Cock (Co-Chairs, BOSC 2016)
9:15-10:15	Keynote: The open-source outbreak: can data prevent the next pandemic?	Jennifer Gardy
10:15-10:45	Coffee Break
10:45-12:30	Session: Workflows	Chair: Brad Chapman
10:45-11:03	GenomeSpace: Open source interoperability platform with crowd-sourced analysis recipes	Ted Liefeld
11:03-11:21	This is Why We Can Have Nice Things: Getting to 1.0 of the Common Workflow Language	Michael R. Crusoe
11:21-11:39	CWL in Practice: Experiences, challenges, and results from adopting Common Workflow Language	Dan Leehr
11:39-11:57	Using the Common Workflow Language (CWL) to run portable workflows with Arvados and Toil	Peter Amstutz
11:57-12:02	Planemo – A Scientific Workflow SDK	John Chilton
12:03-12:08	Sample Size Does Matter: Scaling Up Analysis in Galaxy with Metagenomics	Daniel Blankenberg
12:09-12:14	NextflowWorkbench: Reproducible and Reusable Workflows for Beginners and Experts	Fabien Campagne
12:15-12:20	Promoting platform interoperability with portable bcbio workflows	Brad Chapman
12:20-12:25	Questions for lightning talk speakers in this session
12:30-13:30	Lunch
13:00-14:00	Poster Session and Birds of a Feather sessions (overlapping with lunch)
14:00-15:30	Session: Standards and Interoperability	Chair: Hilmar Lapp
14:00-14:18	Enhancements to MISO: An open-source community-driven LIMS	Andre Masella
14:18-14:36	Biothings APIs: high-performance bioentity-centric web services	Chunlei Wu
14:36-14:54	The Noctua Modeling Tool	Seth Carbon
14:54-15:12	Processing phenotype data using Phenopackets-API and PXFTools	Chris Mungall
15:12-15:17	The EDAM Ontology	Jon Ison
15:18-15:23	Towards traceable, scriptable, and efficient data distribution for next-generation genomics	John Bradley
15:30-16:00	Coffee Break
16:00-17:00	Panel: Growing and sustaining open source communities	Moderator: Mónica Muñoz-Torres Panelists: Abigail Cabunoc Mayes, Bastian Greshake, Jamie Whitacre, John Chilton, Natasha Wood
17:00-17:10	Open Bioinformatics Foundation (OBF) Update
17:10-17:15	Announcements	Nomi Harris
17:15-18:30	Bird of a Feather sessions (BOFs): Feel free to organize one! Sign up [here].
19:00	Pay-your-own-way dinner at Paradiso 37 (at Disney Springs shopping center)

BOSC Day 2 (Saturday, July 9, 2016)

Time	Title	Speaker or Session Chair
9:00-9:05	Announcements	Peter Cock and Nomi Harris
9:05-9:15	Codefest 2016 Report	Brad Chapman (Codefest Organizer)
9:15-10:15	Keynote: Open source, open access, and open data: why science moves faster in an open world	Steven Salzberg
10:15-10:45	Coffee Break
10:45-12:30	Session: Data Science	Chair: Heather Wiencko
10:45-11:03	Mango: Data Exploration on Large Genomic Datasets	Alyssa Morrow
11:03-11:21	ADAM Enables Distributed Analyses Across Large Scale Genomic Datasets	Frank Nothaft
11:21-11:39	SUPERSMART - A Self-Updating platform for Estimating Rates of Speciation and Migration, Ages, and Relationships of Taxa	Hannes Hettling
11:39-11:57	Characterization of the small RNA transcriptome using the bcbio-nextgen python framework	Lorena Pantano Rubino
11:57-12:15	MetaR: simple, high-level languages for data analysis with the R ecosystem	Fabien Campagne
12:15-12:20	Development of NGSEP as an open-source comprehensive solution for analysis of high throughput sequencing data	Jorge Duitama
12:21-12:26	GRNmap and GRNsight: open source software for dynamical systems modeling and visualization of medium-scale gene regulatory networks	Kam D. Dahlquist
12:30-13:30	Lunch
13:00-14:00	Poster Session and BOFs (overlapping with lunch)
14:00-14:40	Session: Developer tools and libraries	Chair: Chris Fields
14:00-14:18	Biopython Project Update 2016	Christian Brueffer
14:18-14:23	Sequenceserver: a modern graphical user interface for custom BLAST databases	Anurag Priyam
14:24-14:29	Linuxbrew and Homebrew-Science to Navigate the Software Dependency Labyrinth	Shaun Jackman
14:30-14:35	SnoVault and encodeD: A novel object-based storage system and applications to ENCODE metadata	Benjamin Hitz
14:40-15:30	Session: Open Science and Reproducibility	Chair: Peter Cock
14:40-14:58	State of the openSNP.org Union: Dockerizing, Crowdfunding & Opening for Contributors	Bastian Greshake
14:58-15:16	The GenePattern Notebook Environment	Michael Reich
15:16-15:21	Reproducibility in computationally intensive workflows with continuous analysis	Brett K Beaulieu-Jones
15:22-15:27	Reproducible Research in the Cloud with the Refinery Platform	Nils Gehlenborg
15:28-15:33	ReportMD: Writing complex scientific reports in R	Peter Humburg
15:30-16:00	Coffee Break
16:00-17:00	Session: Late-Breaking Lightning Talks	Chair: Karsten Hokamp
16:00-16:05	Apollo Genome Annotation Editor: Latest Updates, Including Galaxy Integration	Mónica C. Muñoz-Torres
16:12-16:17	PDB on steroids – compressive structural bioinformatics	Peter Rose
16:18-16:23	Puzzle: VCF/GEMINI interface for genetic disease analysis	Robin Andeer
16:24-16:29	Modernization of the Cytoscape ecosystem	Keiichiro Ono
16:30-16:35	Collaborative Software Development: Lessons from Open Source	Abigail Cabunoc Mayes
16:35-16:40	Questions for lightning talk presenters
16:40-16:50	Concluding remarks	Nomi Harris and Peter Cock
17:00-18:30	BOFs: Feel free to organize one!
19:00	Pay-your-own-way dinner (TBA)

Posters

If a poster presenter also is giving a talk, the poster link will be above. The table below lists poster-only presentations.

Poster	Title	Presenter

BOSC 2016 Organizing Committee

Nomi Harris and Peter Cock (Co-Chairs)

Brad Chapman, Chris Fields, Karsten Hokamp, Hilmar Lapp, Mónica Muñoz-Torres, Heather Wiencko

BOSC 2016 Program Committee

Nomi Harris, Michael Heuer, Karen Cranston, Gianluca Della Vedova, George Githinji, Christopher Fields, Hilmar Lapp, Scott Markel, Frank Nothaft, Lorena Pantano, Michael Reich, Morgan Taschuk, Heather Wiencko, Kai Blin, Spencer Bliven, Brad Chapman, Michael Crusoe, Bastian Greshake, Hans-Rudolf Hotz, Herve Menager, Fiona Nielsen, Konstantin Okonechnikov, João Rodrigues, Eric Talevich, Jason Williams, Melissa Wilson Sayres, Peter Cock, Björn Grüning, Karsten Hokamp, Amye Kenall, John Chilton, Konrad Förstner, Jens Lichtenberg, Monica C Munoz-Torres

BOSC is a community effort—we thank all those who made it possible, including the organizing committee, the program committee, the session chairs, our sponsors, and the ISMB SIG chair, Steven Leard.

If you are interested in helping to organize BOSC 2017, please email bosc@open-bio.org