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Difference between revisions of "BOSC 2014 Schedule"

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(BOSC Day 2: Saturday, 12 July 2014: Move "Integrating Taverna Player into Scratchpads" before lunch)
(BOSC Day 1: Friday, 11 July 2014: Insert OBF update before lunch on day one)
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| Chair: Chris Fields
 
| Chair: Chris Fields
 
|--
 
|--
| 10:45
+
| 10:45-11:03
 
| [Genome-Scale] ADAM: Fast, Scalable Genomic Analysis
 
| [Genome-Scale] ADAM: Fast, Scalable Genomic Analysis
 
| Frank Austin Nothaft
 
| Frank Austin Nothaft
 
|-
 
|-
| 11:05
+
| 11:03-11:21
 
| [Genome-Scale] A framework for benchmarking RNA-seq pipelines
 
| [Genome-Scale] A framework for benchmarking RNA-seq pipelines
 
| Rory Kirchner
 
| Rory Kirchner
 
|-
 
|-
| 11:25
+
| 11:21-11:39
 
| [Genome-Scale] New Frontiers of Genome Assembly with SPAdes 3.1
 
| [Genome-Scale] New Frontiers of Genome Assembly with SPAdes 3.1
 
| Andrey Prjibelski
 
| Andrey Prjibelski
 
|-
 
|-
| 11:45
+
| 11:39-11:57
 
| [Genome-Scale] SigSeeker: An Ensemble for Analysis of Epigenetic Data
 
| [Genome-Scale] SigSeeker: An Ensemble for Analysis of Epigenetic Data
 
| Jens Lichtenberg
 
| Jens Lichtenberg
 
|-
 
|-
| 12:05
+
| 11:57-12:15
 
| [Genome-Scale]  Galaxy as an Extensible Job Execution Platform
 
| [Genome-Scale]  Galaxy as an Extensible Job Execution Platform
 
| John Chilton
 
| John Chilton
 +
|-
 +
| 12:15-12:30
 +
| Open Bioinformatics Foundation (OBF) Update
 +
| Hilmar Lapp (OBF President)
 
|-
 
|-
 
| '''12:30-13:30'''
 
| '''12:30-13:30'''
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| Chair: Rob Davey
 
| Chair: Rob Davey
 
|-
 
|-
| 14:00
+
| 14:00-14:18
 
| [Visualization] WormGUIDES: an Interactive Informatic Developmental Atlas at Subcellular Resolution
 
| [Visualization] WormGUIDES: an Interactive Informatic Developmental Atlas at Subcellular Resolution
 
| Anthony Santella
 
| Anthony Santella
 
|-
 
|-
| 14:18
+
| 14:18-14:36
 
| [Visualization]  BioJS: an open source standard for biological visualisation
 
| [Visualization]  BioJS: an open source standard for biological visualisation
 
| Manuel Corpas
 
| Manuel Corpas
 
|-
 
|-
| 14:36
+
| 14:36-14:54
 
| [Visualization]  Biodalliance: a fast, extensible genome browser
 
| [Visualization]  Biodalliance: a fast, extensible genome browser
 
| Thomas Down
 
| Thomas Down
 
|-
 
|-
| 14:54
+
| 14:54-15:12
 
| [Visualization]  TGAC Browser: visualisation solutions for big data in the genomic era
 
| [Visualization]  TGAC Browser: visualisation solutions for big data in the genomic era
 
| Anil S. Thanki
 
| Anil S. Thanki
 
|-
 
|-
| 15:12
+
| 15:12-15:30
 
| [Visualization]  Explore, analyze, and share genomic data using Integrated Genome Browser
 
| [Visualization]  Explore, analyze, and share genomic data using Integrated Genome Browser
 
| Ann Loraine
 
| Ann Loraine
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| Chair: Peter Cock
 
| Chair: Peter Cock
 
|-
 
|-
| 16:00
+
| 16:00-16:12
 
| [Updates] BioMart 0.9 – introducing tools for data analysis and visualisation
 
| [Updates] BioMart 0.9 – introducing tools for data analysis and visualisation
 
| Luca Pandini
 
| Luca Pandini
 
|-
 
|-
| 16:12
+
| 16:12-16:24
 
| [Updates]  Biocaml: The OCaml Bioinformatics Library
 
| [Updates]  Biocaml: The OCaml Bioinformatics Library
 
| Ashish Agarwal
 
| Ashish Agarwal
 
|-
 
|-
| 16:24
+
| 16:24-16:36
 
| [Updates]  BioRuby and distributed development
 
| [Updates]  BioRuby and distributed development
 
| Pjotr Prins
 
| Pjotr Prins
 
|-
 
|-
| 16:36
+
| 16:36-16:48
 
| [Updates]  Biopython Project Update
 
| [Updates]  Biopython Project Update
 
| Wibowo Arindrarto
 
| Wibowo Arindrarto
 
|-
 
|-
| 16:48
+
| 16:48-17:00
 
| [Updates]  Shared bioinformatics database within Unipro UGENE
 
| [Updates]  Shared bioinformatics database within Unipro UGENE
 
| Ivan Protsyuk
 
| Ivan Protsyuk

Revision as of 09:51, 6 June 2014

BOSC logo

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 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
17:00-18:00 Lightning Talks followed by BOFs Suggest a BOF topic here!
19:00 Pay-your-own-way BOSC dinner


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 [Interoperability] Pathview: an R/Bioconductor package for pathway-based data integration and visualization Weijun Luo
11:03 [Interoperability] Use of semantically annotated resources in the Mobyle2 Web Framework Hervé Ménager
11:20 [Interoperability] Towards ubiquitous OWL computing: Simplifying programmatic authoring of and querying with OWL axioms Hilmar Lapp
11:38 [Interoperability] The coming of the age of the platform for bioinformatics? (And how to keep it open-source) Konstantinos Krampis
12:55 [Interoperability] Integrating Taverna Player into Scratchpads Robert Haines
12:13 [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 [Open Science] SEEK for Science: A Data Management Platform which Supports Open and Reproducible Science Stuart Owen
14:18 [Open Science] Arvados: Achieving Computational Reproducibility and Data Provenance in Large-Scale Genomic Analyses Brett Smith
14:36 [Open Science] Enhancing the Galaxy Experience through Community Involvement Daniel Blankenberg
14:54 [Open Science] Supporting dynamic community developed biological pipelines Brad Chapman
15:12 [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
17:00-17:05 Presentation of Student Travel Awards Nomi Harris (Co-Chair, BOSC 2014)
17:05-18:00 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
... A.N. Other et al.



Return to BOSC 2014 main page