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@nimbios.org
http://www.nimbios.org
http://twitter.com/nimbios
To receive email notifications of blog updates, click here.
To sign up to receive our bi-monthly newsletter, click here.
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@nimbios.org
http://www.nimbios.org
http://twitter.com/nimbios
To receive email notifications of blog updates, click here.
To sign up to receive our bi-monthly newsletter, click here.
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