[Computational-biology] Call for Applications: HPC Application of R and Other Code for Biological Applications, a NIMBioS Tutorial

Catherine Crawley via comp-bio%40net.bio.net (by ccrawley from nimbios.org)
Mon Feb 14 13:24:34 EST 2011


The National Institute for Mathematical and Biological Synthesis
(NIMBioS) is now accepting applications for its tutorial, *"Migration
from the Desktop: HPC Application of R and Other Code for Biological
Applications"** *to be held May 9-11, 2011, at NIMBioS.

*Objectives: *As the number and size of available datasets continue to
grow across all areas of biology, so do the computational resources
required to analyze such datasets. Whether the researcher is a molecular
or ecosystems biologist, questions that exceed the capabilities of
desktop computers and that require the use of high performance computing
(HPC) toolkits are now common. The goal of this workshop is to introduce
the skills, strategies and techniques necessary to make the jump from
desktop computing to HPC environments. The workshop will include
lectures, case-studies, hands-on labs and small group discussions. The
workshop will begin with the basics such as outlining the key
differences between desktop computing and HPC, how to identify and
access appropriate HPC resources, and choosing problems well-suited to
the HPC environment. Visualization tools will also be introduced, as
will topics in data management and best practices in development. Case
studies, which are expected to include projects focused on sequence
evolution, systems biology, and species distribution modeling, will
provide concrete examples of how the shift from desktop to HPC computing
can be achieved. We will present ways of using non-parallel code, for
example R functions, in an HPC environment as a way to take advantage of
the historical computational resources of the biological community. The
tutorial is geared toward biologists (including students, postdocs and
faculty) whose research has grown beyond what desktop computers can
handle and require HPC to progress further. Participants will leave this
tutorial with the skills to identify appropriate high performance
computing resources for their research, perform a parameter sweep,
address data storage issues, and use some common HPC tools in data
analysis and visualization.


*Location: *NIMBioS at the University of Tennessee, Knoxville

*Co-Organizers: *Michael Gilchrist (Ecology and Evolutionary Biology and
NIMBioS, UTK); Jian Huang (Electrical Engineering and Computer Science
and RDAV, UTK); Eric Carr (HPC Specialist NIMBioS); Amy Szczepanski
(Education, Outreach, and Training Coordinator, RDAV)

For more information about the tutorial and a link to the online
application form, go to http://nimbios.org/tutorials/TT_hpc

If needed, applicants may request travel and lodging support.
Participation is limited, and those selected to attend will be notified
within two weeks of the application deadline. *Application deadline:
March 13, 2011*

The National Institute for Mathematical and Biological Synthesis
(NIMBioS) (http://www.nimbios.org) brings together researchers from
around the world to collaborate across disciplinary boundaries to
investigate solutions to basic and applied problems in the life
sciences. NIMBioS is sponsored by the National Science Foundation, the
U.S. Department of Homeland Security, and the U.S. Department of
Agriculture with additional support from The University of Tennessee,
Knoxville.


********************************
Catherine Crawley, Ph.D.
Communications Coordinator
National Institute for Mathematical and Biological Synthesis (NIMBioS)
University of Tennessee
1534 White Avenue
Knoxville, TN 37996-1527
Phone: (865) 974-9350
Fax: (865) 974-9461
Email: ccrawley from nimbios.org
http://www.nimbios.org
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