Fast, Free Phylogenies: HPC for Phylogenetics Tutorial
Topic: High Performance Computing for Phylogenetics
Meeting dates: October 13-15, 2010
Location: NIMBioS at the University of Tennessee, Knoxville
Co-sponsors: NIMBioS, iPlant, and National Institute for Computational Sciences
Tutorial leaders: Eric Carr (NIMBioS); Jim Ferguson (NICS UTK/ORNL); Susan Holmes (Statistics, Stanford); Brian O’Meara (Ecology & Evolutionary Biology, UTK); Sheldon McKay (iPlant); Alexis Stamatakis (Computer & Communication Sciences, Tech. Univ. of Munich); Dan Stanzione (Adv. Computing Ctr/iPlant, Texas); Robert Thomson (Center for Population Biology, UC Davis); James Wilgenbusch (Scientific Computing, Florida State Univ.)
| Agenda (PDF) | Participants | Evaluation report (PDF) |
Objectives: This tutorial focused on how to use TeraGrid, the CIPRES Portal, the iPlant Discovery environment, university clusters, and other typically free HPC resources for phylogenetic analysis. The tutorial was geared primarily toward biologists (including students, postdocs and faculty) who were at least moderately experienced with phylogenetic analysis and who had datasets to run but were typically running analyses on their own desktops, though other researchers, such as statisticians or mathematicians working in phylogenetics, were encouraged to apply. Participants were encouraged to apply as teams (such as a pairing of a biologist and a statistician who collaborate in their work). Participants had the option of receiving instruction in basic Unix usage via webinar and self-paced online resources before the actual workshop, so lack of experience in this area was not a barrier to participation.
