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A list of current modules available is given below:

Field SoftwareversionNotes
Physics and Engineering    
 1LAMMPS2.0LAMMPS is a classical molecular dynamics code.
 2CP2K2.5.1CP2K is the state-of-the-art method for accurate atomistic simulations.
 3Quantum Espresso5.1Quantum Espresso is an integrated suite of codes for electronic-structure calculations at the nanoscale.
 4blendertrunkBlender 3D rendering software.
 5madgraph2.1.2 / 2.2.2MadGraph is a monte carlo generator for particle physics interactions
 6octave3.8.1Octave is a high-level interpreted language, primarily intended for numerical computations. 
 7R3.1.1 R is a free software environment for statistical computing and graphics.
 8graphviz2.38.0Graphviz is an application for visualizing networks and graphs.
 9ROOT5.34-21ROOT is a high energy physics data analysis framework.
 10qhull2012qhull libraries provide functions for computing convex hull.
 11glpk4.54glpk is the GNU's linear programming took kit.
 12gnuplot4.6.5Gnuplot is an application for generating plots.
 13matlab runtime libraries (compiled)2013matlab is a high-level language and interactive environment for numerical computation, visualization, and programming.
 14matlab runtime libraries (compiled)2014matlab  is a high-level language and interactive environment for numerical computation, visualization, and programming.
 15 siesta3.2SIESTA performs efficient electronic structure calculations of molecules and solids.
  16udunits

2.2.17

UDUNITS package supports units of physical quantities.

  17 CDO 1.6.4 CDO is a collection of command line Operators to manipulate and analyse Climate and NWP model Data. 
     
Chemistry and Bio-Chemistry    
 1GAMESSMay, 2013GAMESS is a general ab initio quantum chemistry package.
 2NAMD2.9NAMD 2.9.  Molecular dynamics simulator.
 3gromacs4.6.5Gromacs molecular dynamics simulator. Requires fftw/fftw-3.3.4-gromacs, lapack, and atlas modules to be loaded.
 4gromacs5.0.0Gromacs molecular dynamics simulator. Requires fftw/fftw-3.3.4-gromacs, lapack, and atlas modules to be loaded.
 5vmd1.9.1

VMD is a molecular dynamics visualization application.

 6autodock4.2.6autodock is a suite of automated docking tools to predict how small molecules bind to a receptor.
 7openbabel2.3.2Open Babel is a chemical toolbox designed to speak the many languages of chemical data. 
 8CASINO2.13.211CASINO performs quantum Monte Carlo (QMC) electronic structure calculations.
Bio-Informatics    
 1blast2.2.29blast is a tool to search and align gene and protein sequences.
 2blasr1.3.1blasr is a tool to search and align sequences with refinements.
 3samtools0.1.17Samtools is a set of utilities for working with data in sequence alignment map format.
 4PBSuite14.9.9PBSuite is a software for long-read sequencing data from PacBio.
 5mafft7.1MAFFT is a multiple sequence alignment program and offers a range of multiple alignment methods.
 6muscle3.8.31MUSCLE stands for MUltiple Sequence Comparison by Log- Expectation
 7uclust2.22uclust offers search and clustering algorithms that are often orders of magnitude faster than BLAST. 
 8bedtools2.21bedtools  - set of tools for a wide-range of genomics analysis tasks.
 9hmmer3.1HMMER searches and aligns homologs of protein sequences using hidden Markov models.
 10mrbayes3.2.2MrBayes is a program for Bayesian inference of phylogenetic and evolutionary models. 
 11bowtie2.2.3bowtie is an ultrafast and memory-efficient tool for aligning sequencing reads to long reference sequences.
 12SHRiMP

2.2.3

SHRiMP is a software package for aligning genomic reads against a target genome. 
 13bwa 2014BWA is a package for mapping low-divergent sequences against a large reference genome.
 14MUMmer3.23MUMmer is a system for rapidly aligning entire genomes, whether in complete or draft form
 15cufflinks2.2.1Cufflinks assembles transcripts, estimates their abundances, and tests for differential expression and regulation in RNA-Seq samples.
 16tophat2.0.13TopHat is a fast splice junction mapper for RNA-Seq reads.
Numerical Libraries    
 1ATLAS Libraries3.10.1ATLAS 3.10.1 libraries.  Libraries for linear algebra.
 2LAPACK libraries3.5LAPACK 3.5.0 libraries.  Libraries for linear algebra.
 3FFTW3.3.4-gromacsFFTW is a library for fast fourier transforms. FFTW 3.3.4 library compiled with gromacs specific options.
 4FFTW3.3.4FFTW is a library for fast fourier transforms. FFTW 3.3.4 library compiled for general use.
 5SparseSuite4.2.1SuiteSparse is a suite of sparse matrix algorithms.
 6gsl1.16The GNU Scientific Library (GSL) is a numerical library for C and C++ programmers.
 7geos3.4.2GEOS (Geometry Engine - Open Source) is an API for processing spatial geometry.
 8boost1.50boost  provides free peer-reviewed portable C++ source libraries.
 9boost1.56boost  provides free peer-reviewed portable C++ source libraries.
 10netcdf4.2NetCDF is a set of software libraries supporting array-oriented scientific data.
 11nco4.3The NCO toolkit manipulates and analyzes data stored in netCDF-accessible formats.
 12sundials 2.5SUNDIALS (SUite of Nonlinear and DIfferential/ALgebraic equation Solvers)
 13sdpa 7.3.8SDPA (Semi Definite Programming Algorithm) is one of the efficient software package for solving SDPs.
     
Software Libraries, Languages and Tools    
 1Python 2.72.7Interpreter for the python programming language
 2Modules for Python 2.7all-pkgsOnly available after python 2.7 module loaded, requires atlas and lapack modules to be loaded.  Provides Numpy, Scipy, Scikit-learn, matplotlib, Pandas, and  NLTK
 3Python 3.43.4Interpreter for the python programming language
 4Modules for Python 3.4all-pkgsOnly available after python 3.4 module loaded, requires atlas and lapack modules to be loaded.  Provides Numpy, Scipy, Scikit-learn, matplotlib, and  Pandas
 5cmake 3.0cmake is a cross platform make utility
 6ectoolstrunkectools is a set of tools for correcting long read assembly data
 7gcc4.6.2 /  4.6.4 / 4.9.2gcc is a set of compilers for c, c++ and a few other languages.
 8git1.9.0Git is a software change management tool.
 9mercurial1.9.1Mercurial is a source code management tool.
 10hdf51.8.9 / 1.8.12/ 1.8.13hdf5 is a library for storing and managing data in flexible, efficient file format.
 11pcre8.35pcre is perl compatible regular expression library.
 12

subversion

1.8.10subversion is a source control revision tool.
 13valgrind3.10valgrind can detect memory management and threading bugs, and profile your programs in detail.
 14mplayer1.1mplayer is an image viewer and editor.
 15curl7.37.1curl is a command line HTTP client
 16wget1.15wget is a command line HTTP client
 17serf1.37serf is a library that provides high performance http client functions.
 18jpeg6b/9aLibjpeg is a widely used C library for reading and writing jpeg image files.
 19apr1.5.1The Apache Portable Runtime (APR) libraries provide a interface to platform-specific implementations.
 20apr-util1.5.3Utilities for the Apache Portable Runtime (APR)  libraries.
 21 papi5.3.2PAPI is a performance profiler.
 22ruby2.1ruby is a dynamic, open source programming language with a focus on simplicity and productivity.
 23ant1.9.4Ant is a Java library and command-line tool is to drive processes described in build files.
 24java7u71Java
 25java8u25Java   
 26fpc2.6.4free pascal Free Pascal is a 32,64 and 16 bit professional Pascal compiler.
 27expat2.1.0Expatis an XML parser library written in C. 
 28tcl8.6.2Tcl (Tool Command Language) is a very powerful but easy to learn dynamic programming language.
 29swift0.94.1swift is a parallel scripting language.
 30scons2.3.4SCons is a software construction tool and is a superior alternative to the classic "Make" build tool.
 31proot2014PRoot is a user-space implementation of chroot, mount --bind, and binfmt_misc.
 32ffmpeg

2.5.2/ 0.10.15

ffmpeg- a complete, cross-platform solution to record, convert and stream audio and video.

 33

gnome-libs

1.0The gnome-libs package includes libraries that are needed to run GNOME 1 applications.
 34

stashcp

2.2/2.5

stashcp is a  front-end to XRootD caching for OSG Connect Stash.

 35canopy1.4.1Canopy is the next generation of the Enthought Python Distribution (EPD), adding an advanced text editor, integrated IPython console, graphical package manager and online documentation to Enthought’s proven Python distribution.
 36opencv2.4.10OpenCV (Open Source Computer Vision Library) is an open source computer vision and machine learning software library.
 37poppler-utils0.24.1

Poppler is a PDF rendering library based on the xpdf-3.0 code base

 38

freetype 

2.5.5FreeType 2 provides a simple and easy-to-use API to access font content in a uniform way
To Do    
 -mallet mallet - MAchine Learning for LanguagE Toolkit
  qrupdate qrupdate is a Fortran library for fast updates of QR and Cholesky decompositions.
  numpy  
  

CPMD

  
  julia  
  MEEP  
  openFOAM  
  ogdi  
  elemental  
  scalapack  
  bioperl  
  fsl5.0.7FSL is a comprehensive library of analysis tools for FMRI, MRI and DTI brain imaging data.
  gdal1.9.2gdal is a translator library for raster and vector geospatial data formats.
     
     
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