Usage:

1 2 3 |
module add |

or:

1 2 3 |
module add <modulename>/<version> |

We do not have user documentation pages for all software, any software in the table that has a link will connect to our documentation. If you want to contribute towards documentation for any software, please contact us.

We do not deal with software licenses as we do not hold the budget for them; it is the PI of the research project responsibility to have the right budget for the software that is needed. Any unusual information about licenses or how to set up a license on the ARC system is in a web page linked to from this table. Information on open source licenses and their conditions of use are available from http://opensource.org/licenses.

Module | version(s) | 1 | 2 | M1 | Description | |
---|---|---|---|---|---|---|

A | ||||||

abaqus | 6.9EF | Y | Unified finite element analysis | |||

6.10 | Y | |||||

6.12 | Y | |||||

6.13 | Y | |||||

adams | 2013.2 | Y | Multibody dynamics simulation software | |||

aimpro | 2.3.11b2 | Y | DFT electronic structure and energy calculations | |||

amber | 9 | Y | Molecular modelling and simulation | |||

10 | Y | |||||

12 | Y | Y | ||||

14 | Y | |||||

ampl | 12.6.1.0 | Y | Sophisticated modelling tool that supports the entire optimization modeling lifecycle | |||

ansys | 17.1 | Y | Engineering simulation software (Fluent and CFX) | |||

17.0 | Y | |||||

16.2 | Y | Y | ||||

16.1.1 | Y | |||||

15.0.5 | Y | |||||

14.5.7 | Y | Y | ||||

14.0 | Y | |||||

13.0sp2 | Y | |||||

13.0 | Y | |||||

12.1 | Y | |||||

12.0 | Y | |||||

ansysEM | 15.0 | Y | Y | Electromagnetics simulation software (HFSS) | ||

aten | 1.3 | Y | Tool for the creation and editing of atomic coordinates | |||

B | ||||||

bfast | 0.7.0a | Y | Sequencing tool | |||

blast | 2.2.25 | Y | Sequencing tool | |||

bowtie | 0.12.7 | Y | Sequencing tool | |||

bwa | 0.7.6a | Y | Y | Sequencing tool | ||

0.6.1 | Y | |||||

C | ||||||

castep | 4.4.6 | Y | Materials modelling using density functional theory | |||

5.0.1 | Y | |||||

5.0.2 | Y | |||||

5.5 | Y | |||||

5.5.1 | Y | |||||

6.0p3 | Y | |||||

6.1.1 | Y | Y | ||||

7.0.1 | Y | |||||

cdo | 1.6.1 | Y | command line operators to manipulate and analyse climate and NWP model data | |||

comsol | 4.1 | Y | Multiphysics simulation software environment | |||

4.2 | Y | |||||

4.2a | Y | |||||

4.3 | Y | |||||

4.3a | Y | |||||

4.3b | Y | |||||

4.4 | Y | |||||

5.1 | Y | |||||

cufflinks | 1.3.0 | Y | Sequencing tool for RNA-Seq samples | |||

2.2.1 | Y | |||||

D | ||||||

desmond | 2.2.9.1 | Y | Molecular dynamics simulation software | |||

dl_poly | 2.20 | Y | Polymer dynamics simulation | |||

4.05 | Y | Y | ||||

E | ||||||

ehits | 2009.1 | Y | Molecular docking and virtual screening (Simbiosys developed this product and were brought out by John Wiley & Sons in 2014: there is no current links for this product) | |||

12.0 | Y | Y | ||||

13.0 | Y | |||||

14.0.3 | Y | Y | ||||

espresso | 4.1.2 | Y | Electronic structure calculations | |||

F | ||||||

ferret | 6.8.5 | Y | Y | Data visualisation and analysis package for gridded data sets | ||

fusionmap | 1.42 | Y | DNA sequence fusion junction detection | |||

G | ||||||

gate | 6.2 | Y | Simulations of Preclinical and Clinical Scans in Emission Tomography; Transmission Tomography and Radiation Therapy | |||

gaussian | G03.D02 | Y | Electronic structure modelling | |||

G09 | Y | Y | ||||

G09.D01 | Y | Y | ||||

geant4 | 9.5 | Y | Toolkit for the simulation of the passage of particles through matter | |||

9.6 | Y | |||||

10.0 | Y | |||||

glpk | 4.55 | Y | Solving large-scale linear programming (LP), mixed integer programming (MIP), and other related problems | |||

gmt | 4.5.2 | Y | Manipulation of geographic and Cartesian datasets | |||

gnuplot | 4.2.3 | Y | Graphical plotting | |||

4.6.4 | Y | |||||

grace | 5.1.22 | Y | Graphical plotting | |||

5.1.23 | Y | |||||

gpaw | 0.10.0.11364 | Y | Density-functional theory (DFT) Python code | |||

gromacs | 4.5.1 | Y | molecular dynamics package | |||

4.5.3 | Y | |||||

4.5.5 | Y | |||||

4.5.6 | Y | |||||

4.6.3 | Y | |||||

4.6.5 | Y | |||||

5.0.2 | Y | |||||

gulp | 3.4 | Y | simulation of materials using boundary conditions for molecules and clusters; polymers, surfaces, slabs and grain boundaries; and periodic solids | |||

H | ||||||

hyperworks | 10 | Y | CAE simulation software platform | |||

I | ||||||

idl | 7.0 | Y | Y | Data analysis language | ||

8.4 | Y | |||||

iris-explorer | 5.2 | Y | NAG IRIS Explorer – visualisation software | |||

J | ||||||

joint-snv-mix | 0.7.3 | Analyse sequence data from tumour/normal pairs | ||||

L | ||||||

lammps | 1Feb14 | Y | Large-scale Atomic/Molecular Massively Parallel Simulator | |||

ls-dyna | 971r4.2.1 | Y | General purpose finite element program | |||

M | ||||||

macs | 1.4.1 | Y | Sequencing tool | |||

1.3.7 | Y | |||||

materialsstudio | 5.5.3 | Y | Materials modelling and simulation | |||

matlab | 7.9 | Y | Numeric computation, high level programming, graphics & visualisation | |||

R2012a | Y | Y | ||||

meep | 1.1.1 | Y | FDTD simulation package for em systems | |||

mesmer | 4.0 | Y | Y | Master Equation Solver for Multi-Energy well Reactions | ||

molpro | 2006.1.148 | Y | molecular dynamics package | |||

2010.1.23 | Y | |||||

2010.1.24 | Y | |||||

2010.1.34 | Y | |||||

mpb | 1.4.2 | Y | MIT Photonic Bands. Band structures of periodic dielectrics | |||

N | ||||||

namd | 2.7b4 | Y | Molecular dynamics code for large biomolecular systems | |||

2.8 | Y | |||||

2.9 | Y | Y | ||||

nbo | 6 | Y | Y | Natural Bond Orbital | ||

ncl | 6.0.0-beta | Y | NCAR Command Language. Scientific data analysis and visualisation language. | |||

6.1.2 | Y | |||||

nco | 4.0.8 | Y | netCDF Operator, tools to manipulate netCDF files.( Note: netCDF4 files are not supported) | |||

4.3.7 | Y | Y | ||||

ncview | 1.93g | Y | Visual browser for netCDF files | |||

2.1.2 | Y | |||||

nwchem | 6.5 | Y | Computational chemistry tools | |||

O | ||||||

octave | 3.8.2 | Y | Numerical solution of linear and nonlinear problems, data visualization and manipulation | |||

onetep | 3.0.0 | Y | Quantum mechanical calcs using density functional theory | |||

opendx | 4.4.4 | Y | Open source visualization software package | |||

openeye | 3.0.1 | Y | Y | OpenEye provides software to the pharmaceutical industry for molecular modeling and cheminformatics | ||

openfoam | 1.7.1 | Y | CFD software package | |||

2.1.1 | Y | Y | ||||

2.3.0 | Y | |||||

P | ||||||

paraview | 3.8.1 | Y | Data analysis and visualisation | |||

4.0.1 | Y | |||||

4.3.1 | Y | |||||

pari | 2.5.0 | Y | Computer algebra system for fast computations in number theory | |||

ploticus | 2.41 | Y | Software utility that can produce various types of plots and graphs | |||

Q | ||||||

qhull | 2012.1 | Y | Computes the convex hull, Delaunay triangulation, Voronoi diagram, halfspace intersection about a point, furthest-site Delaunay triangulation, and furthest-site Voronoi diagram | |||

qiime | 1.8.0 | Y | Quantitative Insights Into Microbial Ecology | |||

R | ||||||

R | 2.10.1 | Y | Statistical computing and graphics | |||

2.13.0 | Y | |||||

2.15.0 | Y | |||||

2.15.3 | Y | Y | ||||

3.0.2 | Y | Y | ||||

3.1.0 | Y | Y | ||||

3.2.0 | Y | Y | ||||

relion | 1.2 | Y | Y | cryo-EM refinement tool | ||

1.3 | Y | |||||

1.4 | Y | |||||

S | ||||||

samtools | 0.1.18 | Y | Sequence Alignment/Map – sequence alignment format | |||

1.1 | Y | |||||

sas | 9.2.2 | Y | Business Analytics | |||

schrodinger | 2014-3 | Y | Schrödinger is a scientific leader in computational chemistry, providing software solutions and services for life sciences and materials research. Docking tool. | |||

starccm | 9.06 | Y | General purpose Computational Fluid Dynamics (CFD) software | |||

stata | 12 | Y | Data Analysis and Statistical Software | |||

13 | Y | |||||

13.1 | Y | Y | ||||

stir | 2.4 | Y | Multi-Platform Object-Oriented framework for all data manipulations in tomographic imaging | |||

T | ||||||

tophat | 1.3.3 | Y | !TopHat is a fast splice junction mapper for RNA-Seq reads. Requires Bowtie | |||

V | ||||||

visit | 2.6.3 | Y | Parallel visualisation and graphical analysis tool | |||

2.9.2 | Y | Y | ||||

vmd | 1.8.7 | Y | Visual molecular dynamics package | |||

1.9.1 | Y | |||||

W | ||||||

weka | 3.6.7 | Y | A collection of machine learning algorithms for data mining tasks | |||

wien2k | 09.2 | Y | DFT electronic structure calculations | |||

11.1 | Y | |||||

X | ||||||

xmipp | 2.4 | Y | Image processing programs, primarily aimed at obtaining the 3D reconstruction of biological specimens |