| Please visit our ***NEW*** OBF/BOSC website: https://www.open-bio.org/ |
-
Difference between revisions of "BOSC 2012 Schedule"
From Open Bioinformatics Foundation
(→Day 2: Saturday, July 14 (Room TBA)) |
(→Day 2: Saturday, July 14 (Room TBA)) |
||
| Line 150: | Line 150: | ||
| 15 | | 15 | ||
| [Interoperability] Take-aways from the Interoperability SIG ([http://www.broadinstitute.org/software/bsi-sig/ BSI-SIG]) | | [Interoperability] Take-aways from the Interoperability SIG ([http://www.broadinstitute.org/software/bsi-sig/ BSI-SIG]) | ||
| − | | Michael Reich | + | | Michael Reich (Co-Chair, BSI-SIG) |
|- | |- | ||
| 15 | | 15 | ||
| Line 185: | Line 185: | ||
|- | |- | ||
| 1:45-3:30 | | 1:45-3:30 | ||
| − | | Session: | + | | Session: Bioinformatics Open Source Project Updates |
| Chair: | | Chair: | ||
| + | |- | ||
| + | | 15 | ||
| + | | [Project Updates] Mobyle Web Framework: New Features | ||
| + | | Hervé Ménager | ||
| + | |- | ||
| + | | 15 | ||
| + | | [Project Updates] Biopython Project Update | ||
| + | | Eric Talevich | ||
| + | |- | ||
| + | | 25 | ||
| + | | [Project Updates] Biogem,Ruby UCSC API, and BioRuby | ||
| + | | Hiroyuki Mishima | ||
| + | |- | ||
| + | | 15 | ||
| + | | [Misc/Project Updates] scabio - a framework for bioinformatics algorithms in Scala | ||
| + | | Markus Gumbel | ||
| + | |- | ||
| + | |25 | ||
| + | | [Project Updates] Why Scientists Should Contribute to Wikipedia | ||
| + | | Spencer Bliven | ||
|- | |- | ||
| '''3:30-4:00''' | | '''3:30-4:00''' | ||
| Line 193: | Line 213: | ||
|- | |- | ||
| 4:00-4:30 | | 4:00-4:30 | ||
| − | | Session: | + | | Session: Lightning Talks |
| − | | Chair: | + | | Chair: Kam Dahlquist |
|- | |- | ||
| − | | 4:30-5: | + | | 4:30-5:30 |
| − | | '''Panel''': | + | | '''Panel''': Bioinformatics Paper Reviews: Openness of Standards and Standards of Openness |
| Moderator: Brad Chapman | | Moderator: Brad Chapman | ||
Panelists: | Panelists: | ||
Hilmar Lapp (National Evolutionary Synthesis Center), | Hilmar Lapp (National Evolutionary Synthesis Center), | ||
|- | |- | ||
| − | | 5: | + | | 5:30-5:40 |
| Presentation of awards | | Presentation of awards | ||
| Nomi Harris | | Nomi Harris | ||
|- | |- | ||
| − | | 5: | + | | 5:40-6:30 |
| [[BOSC_2012/BOFs|BOFs]] | | [[BOSC_2012/BOFs|BOFs]] | ||
| | | | ||
Revision as of 21:38, 24 May 2012
Day 1: Friday, July 13
| Time | Topic | Speaker or Moderator |
|---|---|---|
| 7:30-9:00 | Pick up badges for BOSC 2012
(Early arrival is recommended as there are usually long lines) |
Registration |
| 9:00-9:15 | Introduction and welcome | Nomi Harris (Chair, BOSC 2012) |
| 9:15-10:15 | [Keynote] Science Wants to Be Open - If Only We Could Get Out of Its Way | Jonathan Eisen (University of California, Davis) |
| 10:15-10:45 | Coffee Break | |
| 10:45-12:30 | Session: Cloud and Parallel Computing | Chair: |
| 25 | [Cloud] Cloudgene - an execution platform for MapReduce programs in public and private clouds | Sebastian Schoenherr |
| 25 | [Cloud] Data reduction and division approaches for assembling short-read data in the cloud | C. Titus Brown |
| 25 | [Cloud] MGTAXA - a toolkit and a Web server for predicting taxonomy of the metagenomic sequences with Galaxy front-end and parallel computational back-end | Andrey Tovchigrechko |
| 15 | [Cloud] Workflows on the Cloud - Scaling for National Service | Shoaib Sufi |
| 15 | [Cloud] How to use BioJava to calculate one billion protein structure alignments at the RCSB PDB website | Andreas Prlic |
| 12:30-1:30 | Lunch | |
| 12:30-2:00 | Poster Session I (Room TBA) | |
| 2:00-3:30 | Session: Genome-scale Data Management | Chair: |
| 15 | [Genome-scale] Using HDF5 to Work With Large Quantities of Biological Data | Dana Robinson |
| 15 | [Genome-scale] Large scale data management in Chipster 2 workflow environment | Aleksi Kallio |
| 15 | [Genome-scale] JBrowse 2012 | Ian Holmes |
| 15 | [Genome-scale] Khmer: A probabilistic approach for efficient counting of k-mers | Qingpeng Zhang |
| 15 | [Genome-scale] AmiGO 2: a document-oriented approach to ontology software and escaping the heartache of an SQL backend | Seth Carbon |
| 15 | [Genome-scale] Discovery of motif-based regulatory signatures in whole genome methylation experiments | Jens Lichtenberg |
| 3:30-4:00 | Coffee Break | |
| 4:00-5:20 | Session: Linked Data and Translational Knowledge Discovery | Chair: Jan Aerts |
| 25 | [Linked / Translational] The open source ISA metadata tracking framework: from data curation and management at the source, to the linked data universe | Philippe Rocca-Serra |
| 25 | [Linked / Translational] Automated infrastructure for custom variant comparison and analysis | Brad Chapman |
| 15 | [Linked / Translational] KUPKB: Sharing, Connecting and Exposing Kidney and Urinary Knowledge using RDF and OWL | Julie Klein |
| 15 | [Linked / Translational] eagle-i: development and expansion of a scientific resource discovery network | Sophia Cheng |
| 5:20-5:30 | Introduction to the Open Bioinformatics Foundation | Hilmar Lapp (President, Open Bioinformatics Foundation) |
| 5:30-6:30 | Poster Session II (Room TBA) | |
| 5:30-6:30 | BOFs | |
| 7:00 | Pay-your-own-way optional dinner |
Day 2: Saturday, July 14 (Room TBA)
| Time | Topic | Speaker or Moderator |
|---|---|---|
| 8:45-8:50 | Announcements | Nomi Harris |
| 8:50-9:50 | [Keynote] Title TBA | Carole Goble (University of Manchester) |
| 10:15-10:45 | Coffee Break | |
| 10:45-12:30 | Session: Software Interoperability | Chair: |
| 15 | [Interoperability] Take-aways from the Interoperability SIG (BSI-SIG) | Michael Reich (Co-Chair, BSI-SIG) |
| 15 | [Interoperability] Galaxy Project Update | Dannon Baker |
| 15 | [Interoperability] Zero to a Bioinformatics Analysis Platform in 4 Minutes | Enis Afgan |
| 25 | [Interoperability] PyPedia: A python crowdsourcing development environment for bioinformatics and computational biology | Alexandros Kanterakis |
| 15 | [Interoperability] InterMine - Embeddable Data-Mining Components | Alexis Kalderimis |
| 15 | [Interoperability] Creating biology pipelines with BioUno | Bruno Kinoshi ta |
| 15 | [Interoperability] A Framework for Interactive Visual Analysis of NGS Data using Galaxy | Jeremy Goecks |
| 12:30-1:30 | Lunch | |
| 12:30-1:45 | Poster Session III (Room TBA) | |
| 1:45-3:30 | Session: Bioinformatics Open Source Project Updates | Chair: |
| 15 | [Project Updates] Mobyle Web Framework: New Features | Hervé Ménager |
| 15 | [Project Updates] Biopython Project Update | Eric Talevich |
| 25 | [Project Updates] Biogem,Ruby UCSC API, and BioRuby | Hiroyuki Mishima |
| 15 | [Misc/Project Updates] scabio - a framework for bioinformatics algorithms in Scala | Markus Gumbel |
| 25 | [Project Updates] Why Scientists Should Contribute to Wikipedia | Spencer Bliven |
| 3:30-4:00 | Coffee Break | |
| 4:00-4:30 | Session: Lightning Talks | Chair: Kam Dahlquist |
| 4:30-5:30 | Panel: Bioinformatics Paper Reviews: Openness of Standards and Standards of Openness | Moderator: Brad Chapman
Panelists: Hilmar Lapp (National Evolutionary Synthesis Center), |
| 5:30-5:40 | Presentation of awards | Nomi Harris |
| 5:40-6:30 | BOFs |
