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Difference between revisions of "BOSC 2014 Schedule"

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The Asgard Irish Pub and Restaurant, 350 Massachusetts Avenue, Cambridge, MA (about 1.2 miles north of the Hynes convention center).
 
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Revision as of 20:37, 10 June 2014

BOSC logo

This year we have allocated all the talks an equal slot, 15 minutes plus 3 minutes for questions (making 18 minutes), except for the project update session where this is reduced to 10 minutes plus 2 minutes for questions (making 12 minutes in all). Lightning talks are 5 minutes only (no questions), and are intended for a brief introduction with the expectation that interested people will talk in the evening or next day.

Pre-BOSC Codefest: July 9-10, 2014

See Codefest 2014 for details.

BOSC Day 1: Friday, 11 July 2014

Time Topic Speaker, Moderator, or notes
7:30-9:00 Registration Early arrival is recommended as there are usually long lines
9:00-9:15 Introduction and welcome Nomi Harris and/or Peter Cock (Chairs, BOSC 2014)
9:15-10:15 Keynote: A History of Bioinformatics (in the year 2039) C. Titus Brown
10:15-10:45 Coffee Break
10:45-12:30 Session: Genome-scale Data and Beyond Chair: Chris Fields
10:45-11:03 [Genome-Scale] ADAM: Fast, Scalable Genomic Analysis Frank Austin Nothaft
11:03-11:21 [Genome-Scale] A framework for benchmarking RNA-seq pipelines Rory Kirchner
11:21-11:39 [Genome-Scale] New Frontiers of Genome Assembly with SPAdes 3.1 Andrey Prjibelski
11:39-11:57 [Genome-Scale] SigSeeker: An Ensemble for Analysis of Epigenetic Data Jens Lichtenberg
11:57-12:15 [Genome-Scale] Galaxy as an Extensible Job Execution Platform John Chilton
12:15-12:30 Open Bioinformatics Foundation (OBF) Update Hilmar Lapp (OBF President)
12:30-13:30 Lunch (and poster session)
13:00-14:00 Poster Session and Birds of a Feather (overlapping with lunch) Suggest a BOF topic here!
14:00-15:30 Session: Visualization Chair: Rob Davey
14:00-14:18 [Visualization] WormGUIDES: an Interactive Informatic Developmental Atlas at Subcellular Resolution Anthony Santella
14:18-14:36 [Visualization] BioJS: an open source standard for biological visualisation Manuel Corpas
14:36-14:54 [Visualization] Biodalliance: a fast, extensible genome browser Thomas Down
14:54-15:12 [Visualization] TGAC Browser: visualisation solutions for big data in the genomic era Anil S. Thanki
15:12-15:30 [Visualization] Explore, analyze, and share genomic data using Integrated Genome Browser Ann Loraine
15:30-16:00 Coffee Break
16:00-17:00 Session: Bioinformatics Open Source Project Updates and Lightning Talks Chair: Peter Cock
16:00-16:12 [Updates] BioMart 0.9 – introducing tools for data analysis and visualisation Luca Pandini
16:12-16:24 [Updates] Biocaml: The OCaml Bioinformatics Library Ashish Agarwal
16:24-16:36 [Updates] BioRuby and distributed development Pjotr Prins
16:36-16:48 [Updates] Biopython Project Update Wibowo Arindrarto
16:48-17:00 [Updates] Shared bioinformatics database within Unipro UGENE Ivan Protsyuk
17:00-17:05 [Lightning] Fostering the next generation of data-driven open science with R Karthik Ram
17:07-17:12 [Lightning] Tripal: an open source toolkit for building genomic and genetic data websites and databases Margaret Staton
17:14-17:19 [Lightning] PLUTo: Phyloinformatic Literature Unlocking Tools Ross Mounce
17:21-17:26 [Lightning] A publication model that aligns with the key Open Source Software principles Michael L. Markle
17:27-17:30 Announcements Nomi Harris and/or Peter Cock
17:30-18:30 BOFs Suggest a BOF topic here!
19:00 Pay-your-own-way BOSC dinner,

The Asgard Irish Pub and Restaurant, 350 Massachusetts Avenue, Cambridge, MA (about 1.2 miles north of the Hynes convention center).

Only those who RSVP will be admitted.


BOSC logo

BOSC Day 2: Saturday, 12 July 2014

Time Topic Speaker or Moderator
8:45-8:50 Announcements Peter Cock and/or Nomi Harris (Chairs, BOSC 2014)
8:50-9:00 Codefest 2014 Report Brad Chapman
9:00-9:15 Open Bioinformatics Foundation (OBF) update Hilmar Lapp (President, Open Bioinformatics Foundation)
9:15-10:15 Keynote: Biomedical Research as an Open Digital Enterprise Philip Bourne
10:15-10:45 Coffee Break
10:45-12:30 Session: Software Interoperability Chair: Raoul Bonnal
10:45-11:03 [Interoperability] Pathview: an R/Bioconductor package for pathway-based data integration and visualization Weijun Luo
11:03-11:21 [Interoperability] Use of semantically annotated resources in the Mobyle2 Web Framework Hervé Ménager
11:21-11:39 [Interoperability] Towards ubiquitous OWL computing: Simplifying programmatic authoring of and querying with OWL axioms Hilmar Lapp
11:39-11:57 [Interoperability] The coming of the age of the platform for bioinformatics? (And how to keep it open-source) Konstantinos Krampis
11:57-12:15 [Interoperability] Integrating Taverna Player into Scratchpads Robert Haines
12:15-12:33 [Interoperability] Small tools for Bioinformatics Pjotr Prins
12:30-13:30 Lunch (and poster session)
13:00-14:00 Poster Session and Birds of a Feather (overlapping with lunch) Suggest a BOF topic here!
14:00-15:30 Session: Open Science and Reproducible Research Chair: Hilmar Lapp
14:00-14:18 [Open Science] SEEK for Science: A Data Management Platform which Supports Open and Reproducible Science Stuart Owen
14:18-14:36 [Open Science] Arvados: Achieving Computational Reproducibility and Data Provenance in Large-Scale Genomic Analyses Brett Smith
14:36-14:54 [Open Science] Enhancing the Galaxy Experience through Community Involvement Daniel Blankenberg
14:54-15:12 [Open Science] Supporting dynamic community developed biological pipelines Brad Chapman
15:12-15:30 [Open Science] Open as a strategy for durability, reproducibility and scalability Jonathan Rees
15:30-16:00 Coffee Break
16:00-17:00 Panel: Reproducibility: Rewards and Challenges Moderator: Brad Chapman;

Panelists: Phil Bourne, Titus Brown, Varsha Khodiyar, Kay Thaney

17:00-17:10 Presentation of Student Travel Awards & Concluding Remarks Nomi Harris (Co-Chair, BOSC 2014)
17:10-18:00 BOFs Suggest a BOF topic here!

Note the ISMB reception starts at 17:30...


Posters

Shared links to presented posters will be posted here:

Title Presenter
...



Eagle Genomics logo
            
GigaScieece
        
Curoverse logo
Arvados logo
        
Google

We thank Eagle Genomics for sponsoring the BOSC Student Travel Awards again this year, and welcome the open access journal GigaScience, and Curoverse (the team behind the open source platform Arvados) as new sponsors for BOSC 2014.

We are grateful to Google for their generous support for videorecording BOSC 2014.


Return to BOSC 2014 main page