genome.smcm.edu Bioinformatics Server

Table of Contents

System Components

  • Four AMD Opteron 16-Core 2.1GHz, 16MB Cache Model 6272, 115W
  • 128GB 1333MHz DDR3-1333 ECC REG SDRAM PC3-10660 DIMM 10.6GB/sec
  • 4TB 6Gb/s Hard Drive, 7200RPM, 64M Cache
  • nVidia GeForce GT 220 PCI-E DDR2 1GB w DVI/VGA

Hosted Databases

Software versions

Operating System

  • Ubuntu 12.04.4 LTS

Programming

  • gcc v4.6.3 (updated 14 Dec 2012)
  • perl v5.14.2 (updated 14 Dec 2012)
  • python v2.7.3 (updated 14 Dec 2012)
  • ruby v1.9.3p0 (updated 14 Dec 2012)
  • java v1.7.0_10 (updated 27 Dec 2012)
  • java SE runtime build 1.7.0_10-b18 (updated 27 Dec 2012)
  • java HotSpot 64-bit server VM (updated 27 Dec 2012)
  • Rstudio Server v0.97.248 (updated 07 Jan 2013)
  • R v 2.14.1 (updated 29 Apr 2013)
    • packges qtl, snow, rlecluster
  • GNU parallel v.20120422 (updated 20 Feb 2013)

Bioinformatics

Phylogenetics

  • jModelTest v2.1.2 (updated 15 Feb 2013)
  • PhyML v3.0 (updated 14 Dec 2012)
  • PAUP v4b10 (updated 05 Jun 2014)

Links

Please contact Kevin Emerson |kjemerson@smcm.edu| if you would like access to the server or require any additional software.