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The package cirls provides routines to fit Generalized
Linear Models (GLM) with coefficients subject to linear constraints,
through a constrained iteratively reweighted least-squares
algorithm.
The easiest way to install the cirls package is to
install it from CRAN
install.packages("cirls")Although not recommended, the development version can be installed
from GitHub using the devtools package as
devtools::install_github("PierreMasselot/cirls")The central function of the package is cirls.fit meant
to be passed through the method argument of the
glm function. The user is also expected to pass a either
constraint matrix or a list of constraint matrices through the
Cmat argument, and optionally lower and upper bound vectors
lb and ub.
The package also contains dedicated methods to extract the
variance-covariance matrix of the coefficients vcov. cirls
as well as confidence intervals confint.cirls.
The example below show how to use the package to perform nonnegative
regression. See ?cirls.fit for more comprehensive
examples.
# Simulate predictors and response with some negative coefficients
set.seed(111)
n <- 100
p <- 10
betas <- rep_len(c(1, -1), p)
x <- matrix(rnorm(n * p), nrow = n)
y <- x %*% betas + rnorm(n)
# Define constraint matrix
Cmat <- diag(p)
# Fit GLM by CIRLS
res <- glm(y ~ x, method = cirls.fit, Cmat = list(x = Cmat))
coef(res)
# Obtain vcov and confidence intervals
vcov(res)
confint(res)To come
These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.