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ISMB/ECCB Stockholm 2009:
ISMB/ECCB
TT42: Karim Chine - Computational Biology in the cloud, towards a federative and collaborative R-based platform
June 30
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Richard Klancer, Tom Walsh, Neil Saunders and 4 other people liked this
Eamonn Maguire talking on behalf of Karim Chine
- Gabriele Sales
Java program (web app or web start app) built on R and Scilab
- Gabriele Sales
Biocep-R
- Allyson Lister
RESTful API.
- Allyson Lister
Website: http://biocep-distrib.r-forge.r-project.org/
- Gabriele Sales
BIOCEP-R has advanced graphics - more than with regular R
- Allyson Lister
Built on top of R and Scilab
- Cass Johnston
wow - their software is an "ecosystem" :)
- Allyson Lister
Computational scripts: R / Python / Groovy
- Gabriele Sales
The BIOCEP computational open platform ecosystem: computational data sources, resources, components, GUIs, web services and scripts
- Allyson Lister
Data storage: local, NFS, FTP, S3
- Gabriele Sales
Components such as R, Bioconductor; GUIs with collaborative views; Scripting (R/Python/Ruby); stateless web services; NFS/FTP/S3 storage; cluster/grid support
- Oliver Hofmann
The R Virtualization is like a mini-desktop.
- Allyson Lister
Server side spreadsheet sync'd on all clients.
- Gabriele Sales
Visual GUI builder in Netbeans.
- Gabriele Sales
Creation of EC2 workers on demand. Supports multiple worker pools.
- Gabriele Sales
Biocep can automatically add workers on the cloud on demand given a certain load
- Oliver Hofmann
Demo
- Gabriele Sales
Uses Amazon Elastic Cloud (Is that right?)
- Allyson Lister
A bit of free ads for AWS...
- Lars G. T. Jorgensen
Looks like the kind of tools needed to get people to utilize the cloud...
- Lars G. T. Jorgensen
Showing us the R console and some simple operations
- Allyson Lister
FYI: AWS are giving grants for use of their services: http://aws.amazon.com/educati...
- Cass Johnston
The web services part means you can use BIOCEP to connect to a cloud instance.
- Allyson Lister
(It's actually an incredible wrapper / workbench to tie together all kinds of different tools and algorithms)
- Oliver Hofmann
Showing client - server interactions on a single machine. The automatically synchronized spreadsheet.
- Gabriele Sales
Go find Eamonn if you have any questions!
- Allyson Lister
http://www.biocep.net
- Allyson Lister
Looks very promising.. I especially liked the easy selection of spreadsheet cells and using them in the virtual R workbench.
- Peter Menzel