We have two high performance computing (HPC) clusters for bioinformatics data storage and analysis: NGS Galaxy cluster for next generation sequencing (NGS) data analysis and iNquiry biocomputing cluster for general bioinformatics data analysis.
NGS Galaxy Cluster:
Recently we assembled a new NGS Galaxy cluster for NGS data analysis to support new ION Torrent PGM sequencer at Molecular Research Core Facility (MRCF). This cluster is rack-mounted and includes:
Total cluster cores: 156
Total cluster storage: 22TB
NGS Galaxy Cluster software:
iNquiry Biocomputing Cluster:
We have assembled the ISU-EGG Apple Xserve computational biology cluster for comparative genomics. The cluster is rack-mounted (APC NetShelter VX 42U) and includes:
Total cluster processor power: 195 gigaflops (floating-point operations per second)
Other EGG-associated servers:
iNquiry Biocomputing Cluster software:
We have installed and configured the iNquiry suite containing over 200 bioinformatics applications for comparative & functional genomics, proteomics, and phylogenetics. LOG IN HERE. These are many of the same tools in the EMBOSS package. This software suite is optimized for the Xserve multiple-CPU computational biology cluster, and uses Sun GridEngine to automatically distribute submitted processes to one or more compute nodes as needed. We modified the iNquiry suite to cater to the needs of local users and reflect the unique local research environment. These modifications include adding tools (especially for phylogenetics) and databases of interest to registered users.
We installed LAM/MPI and PVM parallel computing environment on EGG. Many applications like MrBayes, Migrate, Clustalw, MPI-BLAST, TreePuzzle, HMMER, fastDNAml, PAUPBOOT etc. can run in parallel. These parallel applications can utilize all the CPUs of the EGG cluster at the same time.