ARC Software

Software Management

For some general consideration for setting up software in your home directory see Managing software on ARC.

• Conda and Miniconda

General Tools

• Python
• Perl

File Format Libraries

• HDF5

Atmospheric research

• CESM

Biomedical research

• Bioconda -- lets you install thousands of software packages related to biomedical research using the Conda package manager.

Chemistry

• Gaussian 16 - a commercial software package for electronic structure modelling.
• ORCA - an ab initio quantum chemistry program package that contains modern electronic structure methods.
• GROMACS - Classical molecular dynamics simulator.

Computational Fluid Dynamics

• ANSYS - Fluent and CFX - commercial CFD software.
• OpenFOAM - Open-source toolkit for creating CFD applications.

Finite Element Modelling

• ANSYS - ANSYS Fluent - commercial software for finite element-based structural analysis.
• Abaqus - Commercial software for finite element-based analysis.
• Nektar++ -- a tensor product based finite element package designed to allow one to construct efficient classical low polynomial order h-type solvers (where h is the size of the finite element) as well as higher p-order piecewise polynomial order solvers.

Geospatial Analysis

• GDAL
• Geopandas

Machine Learning

• Tensorflow
• PyTorch

Mathematical Libaries and Applications

• MATLAB - Commercial general-purpose high-level programming environment for linear algebra, statistics, image processing and a wide range of other calculations.
• Mathematica - Commercial general-purpose high-level programming package for both symbolic and numerical calculations.

Microscopy

• Relion
• Cellprofiler

Neuroimaging

• AFNI
• Freesurfer
• FSL
• fmriprep
• SPM 12

Physics

• ROOT - An open-source data analysis framework used by high energy physics and others.

Statistics

• R
• rstan