This task view on numerical mathematics lists R packages and functions
that are useful for solving numerical problems in linear algebra and
analysis. It shows that R is a viable computing environment for
implementing and applying numerical methods, also outside the realm of
statistics.
The task view will
not
cover differential equations,
optimization problems and solvers, or packages and functions operating
on times series, because all these topics are treated extensively in
the corresponding task views
DifferentialEquations,
Optimization, and
TimeSeries.
All these task views together will provide a good selection of what is
available in R for the area of numerical mathematics.
The
HighPerformanceComputing
task view with its many
links for parallel computing may also be of interest.
The task view has been created to provide an overview of the topic.
If some packages are missing or certain topics in numerical math
should be treated in more detail, please let the maintainer know.
Numerical Linear Algebra
As statistics is based to a large extent on linear algebra, many
numerical linear algebra routines are present in R, and some only
implicitly. Examples of explicitly available functions are vector and
matrix operations, matrix (QR) decompositions, solving linear equations,
eigenvalues/vectors, singular value decomposition, or leastsquares
approximation.

The recommended package
Matrix
provides classes and methods
for dense and sparse matrices and operations on them, for example
Cholesky and Schur decomposition, matrix exponential, or norms and
conditional numbers for sparse matrices.

Recommended package
MASS
adds generalized (Penrose)
inverses and null spaces of matrices.

expm
computes the exponential, logarithm, and square root
of square matrices, but also powers of matrices or the Frechet
derivative.
expm()
is to be preferred to the function
with the same name in
Matrix.

SparseM
provides classes and methods for sparse matrices
and for solving linear and leastsquares problems in sparse linear
algebra

Package
rmumps
provides a wrapper for the MUMPS library,
solving large linear systems of equations applying a parallel sparse
direct solver

Rlinsolve
is a collection of iterative solvers for sparse
linear system of equations. Stationary iterative solvers such as
Jacobi or GaussSeidel, as well as nonstationary (Krylov subspace)
methods are provided.

svd
provides R bindings to stateoftheart implementations
of singular value decomposition (SVD) and eigenvalue/eigenvector
computations. Package
ssvd
will obtain sparse SVDs using an
iterative thresholding method, while
irlba
will compute
approximate singular values/vectors of large matrices.

Package
PRIMME
interfaces PRIMME, a C library for computing
eigenvalues and corresponding eigenvectors of real symmetric or
complex Hermitian matrices. It can find largest, smallest, or interior
eigen/singular values and will apply preconditioning to accelerate
convergence.

The packages
geigen
and
QZ
compute generalized
eigenvalues and vectors for pairs of matrices, and QZ (generalized
Schur) decompositions.

eigeninv
generates matrices with a given set of
eigenvalues ('inverse eigenvalue problem').

Package
rARPACK, a wrapper for the ARPACK library, is
typically used to compute only a few eigenvalues/vectors, e.g., a
small number of largest eigenvalues.

Package
RSpectra
interfaces the 'Spectra' library for
largescale eigenvalue decomposition and SVD problems.

optR
uses elementary methods of linear algebra (Gauss, LU,
CGM, Cholesky) to solve linear systems.

matrixcalc
contains a collection of functions for matrix
calculations, special matrices, and tests for matrix properties,
e.g., (semi)positive definiteness.

Package
onion
contains routines for manipulating
quaternions and octonians (normed division algebras over the real
numbers); quaternions can be useful for handling rotations in
threedimensional space.

Packages
RcppArmadillo
and
RcppEigen
enable the
integration of the C++ template libraries 'Armadillo' resp. 'Eigen'
for linear algebra applications written in C++ and integrated in R
using
Rcpp
for performance and ease of use.
Special Functions
Many special mathematical functions are present in R, especially
logarithms and exponentials, trigonometric and hyperbolic functions, or
Bessel and Gamma functions. Many more special functions are available in
contributed packages.

Package
gsl
provides an interface to the 'GNU Scientific
Library' that contains implementations of many special functions,
for example the Airy and Bessel functions, elliptic and exponential
integrals, the hypergeometric function, Lambert's W function, and
many more.

Airy and Bessel functions, for real and complex numbers, are also
computed in package
Bessel, with approximations for large
arguments.

Package
pracma
includes special functions, such as
error functions and inverses, incomplete and complex gamma function,
exponential and logarithmic integrals, Fresnel integrals, the
polygamma and the Dirichlet and Riemann zeta functions.

appell
computes Gauss' 2F1 and Appell's F1 hypergeometric
functions for complex parameters and arguments quite accurately.

The hypergeometric (and generalized hypergeometric) function, is
computed in
hypergeo, including transformation formulas
and special values of the parameters.

Elliptic and modular functions are available in package
elliptic, including the Weierstrass P function and
Jacobi's theta functions.
There are tools for visualizing complex functions.

Package
expint
wraps Cfunctions from the GNU Scientific
Library to calculate exponential integrals and the incomplete Gamma
function, including negative values for its first argument.

fourierin
computes Fourier integrals of functions of one
and two variables using the Fast Fourier Transform.

logOfGamma
uses approximations to compute the natural
logarithms of the Gamma function for large values.

Package
lamW
implements both realvalued branches of the
Lambert W function (using Rcpp).
Polynomials
Function polyroot() in base R determines all zeros of a polynomial,
based on the JenkinsTraub algorithm. Linear regression function lm()
can perform polynomial fitting when using
poly()
in the model
formula (with option
raw = TRUE).

Packages
polynom
and
PolynomF
provide similar
functionality for manipulating univariate polynomials, like
evaluating polynomials (Horner scheme), differentiating or integrating
them, or solving polynomials, i.e. finding all roots (based on an
eigenvalue computation).

Package
MonoPoly
fits univariate polynomials to given data,
applying different algorithms.

For multivariate polynomials, package
multipol
provides
various tools to manipulate and combine these polynomials of several
variables.

Package
mpoly
facilitates symbolic manipulations on
multivariate polynomials, including basic differential calculus
operations on polynomials, plus some Groebner basis calculations.

Package
orthopolynom
consists of a collection of functions
to construct orthogonal polynomials and their recurrence relations,
among them Chebyshev, Hermite, and Legendre polynomials, as well as
spherical and ultraspherical polynomials. There are functions to
operate on these polynomials.
Differentiation and Integration
D()
and
deriv()
in base R compute
derivatives of simple expressions symbolically.
Function
integrate()
implements an approach for numerically
integrating univariate functions in R. It applies adaptive GaussKronrod
quadrature and can handle singularities and unbounded domains to a certain
extent.

Package
Deriv
provides an extended solution for symbolic
differentiation in R; the user can add custom derivative rules, and the
output for a function will be an executable function again.

numDeriv
sets the standard for numerical differentiation
in R, providing numerical gradients, Jacobians, and Hessians, computed
by simple finite differences, Richardson extrapolation, or the highly
accurate complex step approach.

Package
autodiffr
(on Github)
provides an R wrapper for the Julia packages ForwardDiff.jl and
ReverseDiff.jl to do automatic differentiation for native R functions.
(Works only with Julia v0.6 for the moment)

pracma
contains functions for computing numerical
derivatives, including Richardson extrapolation or complex step.
fderiv()
computes numerical derivatives of higher orders.
pracma
has several routines for numerical integration:
adaptive Lobatto quadrature, Romberg integration, NewtonCotes
formulas, ClenshawCurtis quadrature rules.
integral2()
integrates functions in two dimensions, also for domains characterized
by polar coordinates or with variable interval limits.

Package
gaussquad
contains a collection of functions to
perform Gaussian quadrature, among them Chebyshev, Hermite, Laguerre,
and Legendre quadrature rules, explicitly returning nodes and weights
in each case. Function
gaussquad()
in package
statmod
does a similar job.

Package
fastGHQuad
provides a fast
Rcpp
based
implementation of (adaptive) GaussHermite quadrature.

Adaptive multivariate integration over hyperrectangles in
ndimensional space is available in package
cubature
as
function
adaptIntegrate(), based on a C library of the
same name. The integrand functions can even be multivalued.

vegas()
includes an approach to Monte Carlo
integration based on importance sampling.

mvQuad
provides methods for generating multivariate grids
that can be used for multivariate integration. These grids will be
based on different quadrature rules such as NewtonCotes or Gauss
quadrature formulas.

Package
SparseGrid
provides another approach to
multivariate integration in highdimensional spaces. It creates sparse
ndimensional grids that can be used as with quadrature rules.

Package
SphericalCubature
employs
cubature
to
integrate functions over unit spheres and balls in ndimensional
space;
SimplicialCubature
provides methods to integrate
functions over mdimensional simplices in ndimensional space.
Both packages comprise exact methods for polynomials.

Package
polyCub
holds some routines for numerical
integration over polygonal domains in two dimensions.

Package
Pade
calculates the numerator and denominator
coefficients of the Pade approximation, given the Taylor series
coefficients of sufficient length.

features
extracts features from functional data, such as
first and second derivatives, or curvature at critical points, while
RootsExtremaInflections
finds roots, extrema and
inflection points of curves defined by discrete points.
Interpolation and Approximation
Base R provides functions
approx()
for constant and linear
interpolation, and
spline()
for cubic (Hermite) spline
interpolation, while
smooth.spline()
performs cubic spline
approximation. Base package splines creates periodic interpolation
splines in function
periodicSpline().

Interpolation of irregularly spaced data is possible with the
akima
package:
aspline()
for univariate data,
bicubic()
or
interp()
for data on a 2D
rectangular domain. (This package is distributed under ACM license and
not available for commercial use.)

Package
signal
contains several
filters
to smooth
discrete data, notably
interp1()
for linear, spline, and
cubic interpolation,
pchip()
for piecewise cubic Hermite
interpolation, and
sgolay()
for SavitzkyGolay
smoothing.

Package
pracma
provides barycentric Lagrange interpolation
(in 1 and 2 dimensions) in
barylag()
resp.
barylag2d(), 1dim. akima in
akimaInterp(),
and interpolation and approximation of data with rational functions,
i.e. in the presence of singularities, in
ratinterp()
and
rationalfit().

The
interp
package provides bivariate data interpolation
on regular and irregular grids, either linear or using splines.
Currently the piecewise linear interpolation part is implemented.
(It is intended to provide a free replacement for the ACM licensed
akima::interp
and
tripack::tri.mesh
functions.)

Package
chebpol
contains methods for creating multivariate
Chebyshev and multilinear interpolation on regular grids, e.g. the
FloaterHormann barycenter method, or polyharmonic splines for scattered data.

tripack
for triangulation of irregularly spaced data is a
constrained twodimensional Delaunay triangulation package providing
both triangulation and generation of Voronoi mosaics of irregular
spaced data.

sinterp()
in package
stinepack
realizes
interpolation based on piecewise rational functions by applying
Stineman's algorithm. The interpolating function will be monotone in
regions where the specified points change monotonically.

Schumaker()
in package
schumaker
implements
shapepreserving splines, guaranteed to be monotonic resp. concave
or convex if the data is monotonic, concave, or convex.

ADPF
uses leastsquares polynomial regression and
statistical testing to improve SavitzkyGolay smoothing.

Package
conicfit
provides several (geometric and algebraic)
algorithms for fitting circles, ellipses, and conics in general.
Root Finding and Fixed Points
uniroot(), implementing the BrentDecker algorithm, is the
basic routine in R to find roots of univariate functions. There are
implementations of the bisection algorithm in several contributed
packages. For root finding with higher precision there is function
unirootR()
in the multiprecision package
Rmpfr.
And for finding roots of multivariate functions see the following two
packages:

For solving nonlinear systems of equations the
BB
package
provides (nonmonotone) BarzilaiBorwein spectral methods in
sane(), including a derivativefree variant in
dfsane(), and multistart features with sensitivity
analysis.

Package
nleqslv
solves nonlinear systems of equations
using alternatively the Broyden or Newton method, supported by
strategies such as line searches or trust regions.

ktsolve
defines a common interface for solving a set of
equations with
BB
or
nleqslv.

Package
FixedPoint
provides algorithms for finding fixed
point vectors. These algorithms include Anderson acceleration,
epsilon extrapolation methods, and minimal polynomial methods.
Discrete Mathematics and Number Theory
Not so many functions are available for computational number theory.
Note that integers in double precision can be represented exactly up to
2^53  1, above that limit a multiprecision package such as
gmp
is needed, see below.

Package
numbers
provides functions for factorization, prime
numbers, twin primes, primitive roots, modular inverses, extended GCD,
etc. Included are some numbertheoretic functions like divisor
functions or Euler's Phi function.

contfrac
contains various utilities for evaluating
continued fractions and partial convergents.

magic
creates and investigates magical squares and
hypercubes, including functions for the manipulation and analysis
of arbitrarily dimensioned arrays.

Package
freegroup
provides functionality for manipulating
elements of a free group including juxtaposition, inversion,
multiplication by a scalar, power operations, and Tietze forms.

The
partitions
package enumerates additive partitions
of integers, including restricted and unequal partitions.

permutations
treats permutations as invertible functions of
finite sets and includes several mathematical operations on them.

Package
combinat
generates all permutations or all
combinations of a certain length of a set of elements (i.e. a vector);
it also computes binomial coefficients.

Package
arrangements
provides generators and iterators for
permutations, combinations and partitions. The iterators allow users
to generate arrangements in a fast and memory efficient manner.
Permutations and combinations can be drawn with/without replacement
and support multisets.

RcppAlgos
provides flexible functions for generating
combinations or permutations of a vector with or without constraints.
The extension package
bigIntegerAlgos
features a quadratic
sieve algorithm for completely factoring large integers.

Package
Zseq
generates wellknown integer sequences; the
'gmp' package is adopted for computing with arbitrarily large numbers.
Every function has on its help page a hyperlink to the corresponding
entry in the OnLine Encyclopedia of Integer Sequences
(
OEIS
).
MultiPrecision Arithmetic and Symbolic Mathematics

Multiple precision arithmetic is available in R through package
gmp
that interfaces to the GMP C library. Examples are
factorization of integers, a probabilistic prime number test, or
operations on big rationals  for which linear systems of equations
can be solved.

Multiple precision floating point operations and functions are
provided through package
Rmpfr
using the MPFR and GMP
libraries. Special numbers and some special functions are included,
as well as routines for root finding, integration, and optimization
in arbitrary precision.

Brobdingnag
handles very large numbers by holding their
logarithm plus a flag indicating their sign. (An excellent vignette
explains how this is done using S4 methods.)

VeryLargeIntegers
implements a multiprecision library that
allows to store and manage arbitrarily big integers; it includes
probabilistic primality tests and factorization algorithms.

Package
Ryacas
interfaces the computer algebra system
'Yacas'. It supports symbolic and arbitrary precision computations
in calculus and linear algebra.

Package
rSymPy
accesses the symbolic algebra system 'SymPy'
(written in Python) from R.
It supports arbitrary precision computations, linear algebra and
calculus, solving equations, discrete mathematics, and much more.
Python Interfaces
Python, through its modules 'NumPy', 'SciPy', 'Matplotlib', 'SymPy',
and 'pandas', has elaborate and efficient numerical and graphical tools
available.

reticulate
is an R interface to Python modules, classes,
and functions. When calling Python in R data types are automatically
converted to their equivalent Python types; when values are returned
from Python to R they are converted back to R types. This package from
the RStudio team is a kind of standard for calling Python from R.

R package
rPython
permits calls from R to Python, while
RPy
(with Python
module 'rpy2') interfaces R from Python.
SnakeCharmR
is a
fork of 'rPython' with several fixes and improvements.

PythonInR
is another package to interact with Python from
within R. It provides Python classes for vectors, matrices and
data.frames which allow an easy conversion from R to Python and back.

feather
provides bindings to read and write feather files,
a lightweight binary data store designed for maximum speed.
This storage format can also be accessed in Python, Julia, or Scala.

findpython
is a package designed to find an acceptable
Python binary in the path, incl. minimum version or required modules.

'pyRserve' is a Python module for connecting Python to an R process
running
Rserve
as an RPC gateway. This R process can run on
a remote machine, variable access and function calls will be delegated
through the network.

XRPython
(and 'XRJulia') are based on John Chambers'
XR
package and his "Extending R" book and allow for a very
structured integration of R with Python resp. Julia.

Note that
SageMath
is a free open
source mathematics system based on Python, allowing to run R functions, but
also providing access to Maxima, GAP, FLINT, and many more math programs.
SageMath can be downloaded or used through a Web interface at
CoCalc
.
MATLAB, Octave, Julia, and other Interfaces
Interfaces to numerical computation software such as MATLAB
(commercial) or Octave (free) will be important when solving difficult
numerical problems.

The
matlab
emulation package contains about 30 simple
functions, replicating MATLAB functions, using the respective MATLAB
names and being implemented in pure R. (See also
pracma
for many more mathematical functions designed with MATLAB in mind.)

Package
R.matlab
provides tools to read and write MAT
files, which is the MATLAB data format. It also enables a
onedirectional interface with a MATLAB process, sending and
retrieving objects through a TCP/IP connection.
Julia is "a highlevel, highperformance dynamic programming language
for numerical computing", which makes it interesting for optimization
problems and other demanding scientific computations in R.

The Julia interface of the
XRJulia
package by John Chambers
provides direct analogues to Julia function calls. A 'juliaExamples'
package is available on Github.

JuliaCall
provides seamless integration between R and Julia.
Using the highlevel interface, the user can call any Julia function
just like an R function with automatic type conversion.
The commercial programs SAS and Mathematica do have facilities
to call R functions. Here is another Computer Algebra System (CAS)
in Pure Mathematics that can be called from R.

Package
m2r
provides a persistent interface to Macauley2,
an extended software program supporting research in algebraic geometry
and commutative algebra. Macauley2 has to be installed independently,
otherwise a Macauley2 process in the cloud will be instantiated.