Computer Software Available at IRMACS

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IRMACS provides applications to handle most of its researchers' computing needs. Besides the default applications that come with Apple’s OS X environment, the following is a list of the more common applications available for use.

  • ABSoft C++ - C++ compiler for powerpc
  • ABSoft Fortran - Fortran compiler for powerpc
  • ABSoft FX2 Debugger - Debugger for ABSoft C++ and Fortran compilers
  • AccessGrid Client - Tools for connecting to the Grid, visualization and collaboration tools
  • AD Model Builder - Tool for the rapid development and implementation of nonlinear statistical models
  • Adobe Acrobat - PDF file viewer
  • Aqua Emacs - Emacs editor
  • Clustal X - GUI for multiple gene sequence alignment
  • Condor - Distributed computing scheduler
  • Crann - Fast heuristic detecting of adaptive evolution in protein-coding genes
  • Deepview - Tool to analyze several proteins at the same time
  • Desktop Manager - Virtual OS X desktop tool
  • Eclipse - Java based multiple programming language IDE
  • Firefox - Web browser
  • Fugu - Ftp, sftp file transfer client
  • Gimp - Graphic file editing program
  • Gap - Software for computational discrete algebra
  • JMP - Statistics software package for data analysis
  • Jplot - Graph plotting program
  • Magma - Algebraic, geometry, combinatorics and number theory
  • Maple - Mathematical modeling application
  • Mark - Software to estimate parameters from marked animals
  • Matlab - Mathematical modeling application
  • Mesquite - System for evolutionary analysis
  • MRBayes - Bayesian inference of phylogeny
  • MSN Messenger - Instant Messaging client
  • Mutt - Console based email client
  • NetBeans - Java IDE
  • Office - Office suite with Word, Power-point, Excel, and Access
  • OmniGraffle - Diagramming and charting software
  • Paml - Phylogenetic analysis program
  • Paup - Phylogenetic inference program
  • Pauprat - Tool to implement Parsimony and Likelihood Ratchet searches
  • Phylip - Collection of phylogenic applications
  • Pine - Console based email client
  • Povray - 3D model rendering program
  • Python - Scripting language and runtime
  • R - Statistical computing program
  • Ratfor77 - Fortran preprocessor
  • Remote Desktop Connection - RDP Client for connecting to Windows computers
  • Simulink - MATLAB library for dynamic simulation
  • Singular - Algebra system for polynomial computations
  • Skype - VOIP phone application
  • SPlus - Statistics prototyping environment
  • SPSS - Statistical package for social sciences
  • SubEthaEdit - Full featured text editor
  • SVN X - Client for Subversion based repository control systems
  • TCL/TK - Scripting language and runtime
  • TexShop - Latex text editor
  • TextWrangler - Full featured text editor
  • Thunderbird - E-mail client
  • Visual - Studio Multiple programming language IDE
  • VizClient - Data visualization tool
  • WinBugs - Bayesian inference using Gibbs sampling tool
  • Windows Media Player - Program to play video files
  • Xcode - OS X programming IDE
  • Xfig - Diagramming tool
  • Xgrid - Distributed computing library and scheduler