Overview

Many popular math and statistics software packages are available on Rivanna.

General considerations

Available Math & Statistics Software

To get an up-to-date list of the installed math applications, log on to Rivanna and run the following command in a terminal window:

module keyword math

To get more information about a specific module version, run the module spider command, for example:

module spider mathematica/12.1


List of Math & Statistics Software Modules

Module Category Description
dragonn math DragoNN is a toolkit to learn how to model and interpret regulatory sequence data using deep learning.
eigen math Eigen is a C++ template library for linear algebra: matrices, vectors, numerical solvers, and related algorithms.
geos math GEOS (Geometry Engine - Open Source) is a C++ port of the Java Topology Suite (JTS)
gmp math GMP is a free library for arbitrary precision arithmetic, operating on signed integers, rational numbers, and floating point numbers.
gurobi math The Gurobi Optimizer is a state-of-the-art solver for mathematical programming. The solvers in the Gurobi Optimizer were designed from the ground up to exploit modern architectures and multi-core processors, using the most advanced implementations of the latest algorithms.
jags math JAGS is Just Another Gibbs Sampler. It is a program for analysis of Bayesian hierarchical models using Markov Chain Monte Carlo (MCMC) simulation
libxsmm math LIBXSMM is a library for small dense and small sparse matrix-matrix multiplications targeting Intel Architecture (x86).
metis math METIS is a set of serial programs for partitioning graphs, partitioning finite element meshes, and producing fill reducing orderings for sparse matrices. The algorithms implemented in METIS are based on the multilevel recursive-bisection, multilevel k-way, and multi-constraint partitioning schemes.
ntl math NTL is a high-performance, portable C++ library providing data structures and algorithms for manipulating signed, arbitrary length integers, and for vectors, matrices, and polynomials over the integers and over finite fields.
openbugs math OpenBUGS is a software application for the Bayesian analysis of complex statistical models using Markov chain Monte Carlo (MCMC) methods.
sagemath math SageMath is a free open-source mathematics software system licensed under the GPL. It builds on top of many existing open-source packages: NumPy, SciPy, matplotlib, Sympy, Maxima, GAP, FLINT, R and many more
sas math Statistical analysis package
scotch math Software package and libraries for sequential and parallel graph partitioning, static mapping, and sparse matrix block ordering, and sequential mesh and hypergraph partitioning.
stata math Stata is a complete, integrated statistical software package that provides everything you need for data analysis, data management, and graphics.
sundials math SUNDIALS: SUite of Nonlinear and DIfferential/ALgebraic Equation Solvers

Using a Specific Software Module

To use a specific software package, run the module load command. The module load command in itself does not execute any of the programs but only prepares the environment, i.e. it sets up variables needed to run specific applications and find libraries provided by the module.

After loading a module, you are ready to run the application(s) provided by the module. For example:

module load mathematica/12.1