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Difference between revisions of "BOSC 2013 Schedule"
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Revision as of 16:56, 9 July 2013
Preliminary Schedule--subject to change
Day 1: Friday, July 19
| Time | Topic | Speaker or Moderator |
|---|---|---|
| 7:30-9:00 | Registration (Early arrival is recommended as there are usually long lines) | Registration |
| 9:00-9:15 | Introduction and welcome | Nomi Harris (Chair, BOSC 2013) |
| 9:15-10:15 | [Keynote] Network ready research: The role of open source and open thinking | Cameron Neylon (Public Library of Science) |
| 10:15-10:45 | Coffee Break | |
| 10:45-12:30 | Session: Open Science | Chair: Hilmar Lapp |
| 10:45 | [Open Science] Open Science Data Framework: A Cloud enabled system to store, access, and analyze scientific data | Anup Mahurkar |
| 11:00 | [Open Science] myExperiment Research Objects: Beyond Workflows and Packs | Stian Soiland-Reyes |
| 11:15 | [Open Science] Empowering Cancer Research Through Open Development | Juli Klemm |
| 11:30 | [Open Science] DNAdigest - a not-for-profit organisation to promote and enable open-access sharing of genomics data | Fiona Nielsen |
| 11:45 | [Open Science] Jug: Reproducible Research in Python | Luis Pedro Coelho |
| 11:50 | [Open Science] OpenLabFramework: A Next-Generation Open-Source Laboratory Information Management System for Efficient Sample Tracking | Markus List |
| 11:55 | [Open Science] Ten Simple Rules for the Open Development of Scientific Software (followed by discussion) | Andreas Prlic |
| 12:30-1:30 | Lunch | |
| 1:00-2:00 | Poster Session I | |
| 2:00-3:30 | Session: Visualization | Chair: Jan Aerts |
| 2:00 | [Visualization] Refinery Platform - Integrating Visualization and Analysis of Large-Scale Biological Data | Nils Gehlenborg |
| 2:25 | [Visualization] MetaSee: An interactive visualization toolbox for metagenomic sample analysis and comparison | Kang Ning |
| 2:40 | [Visualization] DGE-Vis: Visualisation of RNA-seq data for Differential Gene Expression analysis | David Powell |
| 2:55 | [Visualization] Genomic Visualization Everywhere with Dalliance | Thomas Down |
| 3:10 | [Visualization] Robust quality control of Next Generation Sequencing alignment data | Konstantin Okonechnikov |
| 3:25 | [Visualization] Visualizing bacterial sequencing data with GenomeView | Thomas Abeel |
| 3:30-4:00 | Coffee Break | |
| 4:00-5:15 | Session: Bioinformatics Open Source Project Updates | Chair: Hans-Rudolf Hotz |
| 4:00 | [Project Updates] BioRuby project updates - power of modularity in the community-based open source development model | Toshiaki Katayama |
| 4:15 | [Project Updates] Biopython project update | Peter Cock |
| 4:30 | [Project Updates] InterMine - Collaborative Data Mining | Alex Kalderimis |
| 4:45 | [Project Updates] The GenoCAD 2.2 Grammar Editor | Jean Peccoud |
| 5:00 | [Project Updates] Improvements and new features in the 7th major release of the Bio-Linux distro | Timothy Booth |
| 5:15 | Announcements | Nomi Harris (Chair, BOSC 2013) |
| 5:20-6:30 | Poster Session II | |
| 5:20-6:30 | BOFs -- suggest a BOF topic here! | |
| 7:00 | Pay-your-own-way BOSC dinner |
Day 2: Saturday, July 20
| Time | Topic | Speaker or Moderator |
|---|---|---|
| 8:45 | Announcements | Nomi Harris |
| 8:50 | Codefest 2013 Report | Brad Chapman |
| 9:00 | Open Bioinformatics Foundation: A Community For, By, and Of You | Hilmar Lapp (President, Open Bioinformatics Foundation) |
| 9:15 | [Keynote] Biological sequence analysis in the post-data era | Sean Eddy (Janelia Farm) |
| 10:15-10:45 | Coffee Break | |
| 10:45-12:30 | Session: Software Interoperability | Chair: Jeremy Goecks |
| 10:45 | [Interoperability] BioBlend - Enabling Pipeline Dreams | Enis Afgan |
| 11:10 | [Interoperability] Taverna Components: Semantically annotated and shareable units of functionality | Alan Williams |
| 11:35 | [Interoperability] UGENE Workflow Designer – flexible control and extension of pipelines with scripts | Yuriy Vaskin |
| 11:50 | [Interoperability] Oqtans: A Multifunctional Workbench for RNA-seq Data Analysis | Gunnar Rätsch |
| 12:05 | [Interoperability] PhyloCommons: community storage, annotation and reuse of phylogenies | Hilmar Lapp |
| 12:10 | [Interoperability] GEMBASSY: an EMBOSS associated package for genome analysis using G-language SOAP/REST web services | Kazuharu Arakawa |
| 12:15 | [Interoperability] Rubra - flexible distributed pipelines for bioinformatics | Clare Sloggett |
| 12:30-1:30 | Lunch | |
| 12:30-1:30 | Poster Session III | |
| 1:30-3:30 | Session: Cloud and Genome-Scale Computing | Chair: Peter Cock |
| 1:30 | [Cloud/Genome-Scale] Towards Enabling Big Data and Federated Computing in the Cloud | Enis Afgan |
| 1:45 | [Cloud/Genome-Scale] MyGene.info: Making Elastic and Extensible Gene-centric Web Services | Chunlei Wu |
| 2:00 | [Cloud/Genome-Scale] An update on the Seal Hadoop-based sequence processing toolbox | Luca Pireddu |
| 2:15 | [Cloud/Genome-Scale] Open Source Configuration of Bioinformatics Infrastructure | John Chilton |
| 2:30 | [Cloud/Genome-Scale] An Open Source Framework for Gene Prioritization | Hoan Nguyen |
| 2:55 | [Cloud/Genome-Scale] RAMPART: an automated de novo assembly pipeline | Daniel Mapleson |
| 3:10 | [Cloud/Genome-Scale] OmicsConnect: flexible multi-omics data capture and integration tools for high-throughput biology | Joeri van der Velde |
| 3:30-4:00 | Coffee Break | |
| 4:00-4:40 | Session: Translational Genomics | Chair: Nomi Harris |
| 4:00 | [Translational] Community development of human variant calling and validation pipelines | Brad Chapman |
| 4:25 | [Translational] Understanding Cancer Genomes Using Galaxy | Jeremy Goecks |
| 4:40-5:30 | Panel: Strategies for Funding and Maintaining Open Source Software | Moderator: Brad Chapman
Panelists: Peter Cock, Sean Eddy, Carole Goble, Scott Markel, Jean Peccoud |
| 5:30-5:40 | Presentation of Student Travel Awards | Nomi Harris |
| 5:40-6:40 | BOFs -- suggest a BOF topic here! |
