Biology

Introduction

Research Computing and the HPC Center, as the organization that is directly responsible for development and support of the research computing resources on campus - both hardware and software - are fully committed to supporting biological research computing at the University of Florida. As a part of our commitment to this mission we have a full-time Biological Applications Support specialist and a part-time Biological Computing Training specialist. This section of the HPC wiki is dedicated to all things related to biological research computing at UF. See the Category:Biology for a complete listing of related pages or keep reading. We believe that the success of our support of the biological computing efforts at UF will depend on the four main corner stones - hardware resources, software availability and support, training and documentation, and direct consulting and problem solving. The following sections address each of these major points.

Hardware

BioC - Biocomputing Cluster

UF Research Computing has a matching program for researchers that would like to invest in shared hardware resources at the HPC Center. See the Faculty Update from July 27th, and the PDF with the full description of the program. Contact Erik Deumens for details of the matching program or if you'd like to participate in the next round.

• Based on the results of the first round of the matching program a dedicated computing cluster for biological computing (BioC) will be purchased in the near future. Discussions on the hardware and policies for the BioC cluster are on-going.

Software

Galaxy

The world renowned Galaxy platform for biological computing is being set up at the UF HPC. Please read the UF HPC Galaxy documentation or proceed directly to the HPC Galaxy.

Modules

To ease the burden of setting up, administering, and maintaining a robust computing environment for the multitude of the applications used by biological researchers we implemented an environmental modules system based on lmod software at UF HPC. Please read documentation on using software via modules at UF HPC or peruse the currently much more extensive documentation written by the lmod author.