FDboostLSS: Model-based Gradient Boosting for Functional GAMLSS

In boost-R/FDboost: Boosting Functional Regression Models

Model-based Gradient Boosting for Functional GAMLSS

Description

Function for fitting generalized additive models for location, scale and shape (GAMLSS) with functional data using component-wise gradient boosting, for details see Brockhaus et al. (2018).

Usage

FDboostLSS(
  formula,
  timeformula,
  data = list(),
  families = GaussianLSS(),
  control = boost_control(),
  weights = NULL,
  method = c("cyclic", "noncyclic"),
  ...
)

Arguments

formula	a symbolic description of the model to be fit. If formula is a single formula, the same formula is used for all distribution parameters. formula can also be a (named) list, where each list element corresponds to one distribution parameter of the GAMLSS distribution. The names must be the same as in the families.
timeformula	one-sided formula for the expansion over the index of the response. For a functional response Y_i(t) typically ~bbs(t) to obtain a smooth expansion of the effects along t. In the limiting case that Y_i is a scalar response use ~bols(1), which sets up a base-learner for the scalar 1. Or you can use timeformula=NULL, then the scalar response is treated as scalar. Analogously to formula, timeformula can either be a one-sided formula or a named list of one-sided formulas.
data	a data frame or list containing the variables in the model.
families	an object of class families. It can be either one of the pre-defined distributions that come along with the package gamboostLSS or a new distribution specified by the user (see Families for details). Per default, the two-parametric GaussianLSS family is used.
control	a list of parameters controlling the algorithm. For more details see boost_control.
weights	does not work!
method	fitting method, currently two methods are supported: "cyclic" (see Mayr et al., 2012) and "noncyclic" (algorithm with inner loss of Thomas et al., 2018).
...	additional arguments passed to FDboost, including, family and control.

Details

For details on the theory of GAMLSS, see Rigby and Stasinopoulos (2005). FDboostLSS calls FDboost to fit the distribution parameters of a GAMLSS - a functional boosting model is fitted for each parameter of the response distribution. In mboostLSS, details on boosting of GAMLSS based on Mayr et al. (2012) and Thomas et al. (2018) are given. In FDboost, details on boosting regression models with functional variables are given (Brockhaus et al., 2015, Brockhaus et al., 2017).

Value

An object of class FDboostLSS that inherits from mboostLSS. The FDboostLSS-object is a named list containing one list entry per distribution parameter and some attributes. The list is named like the parameters, e.g. mu and sigma, if the parameters mu and sigma are modeled. Each list-element is an object of class FDboost.

Author(s)

Sarah Brockhaus

References

Brockhaus, S., Scheipl, F., Hothorn, T. and Greven, S. (2015). The functional linear array model. Statistical Modelling, 15(3), 279-300.

Brockhaus, S., Melcher, M., Leisch, F. and Greven, S. (2017): Boosting flexible functional regression models with a high number of functional historical effects, Statistics and Computing, 27(4), 913-926.

Brockhaus, S., Fuest, A., Mayr, A. and Greven, S. (2018): Signal regression models for location, scale and shape with an application to stock returns. Journal of the Royal Statistical Society: Series C (Applied Statistics), 67, 665-686.

Mayr, A., Fenske, N., Hofner, B., Kneib, T. and Schmid, M. (2012): Generalized additive models for location, scale and shape for high-dimensional data - a flexible approach based on boosting. Journal of the Royal Statistical Society: Series C (Applied Statistics), 61(3), 403-427.

Rigby, R. A. and D. M. Stasinopoulos (2005): Generalized additive models for location, scale and shape (with discussion). Journal of the Royal Statistical Society: Series C (Applied Statistics), 54(3), 507-554.

Thomas, J., Mayr, A., Bischl, B., Schmid, M., Smith, A., and Hofner, B. (2018), Gradient boosting for distributional regression - faster tuning and improved variable selection via noncyclical updates. Statistics and Computing, 28, 673-687.

Stoecker, A., Brockhaus, S., Schaffer, S., von Bronk, B., Opitz, M., and Greven, S. (2019): Boosting Functional Response Models for Location, Scale and Shape with an Application to Bacterial Competition. https://arxiv.org/abs/1809.09881

See Also

Note that FDboostLSS calls FDboost directly.

Examples

########### simulate Gaussian scalar-on-function data
n <- 500 ## number of observations
G <- 120 ## number of observations per functional covariate
set.seed(123) ## ensure reproducibility
z <- runif(n) ## scalar covariate
z <- z - mean(z)
s <- seq(0, 1, l=G) ## index of functional covariate
## generate functional covariate
if(require(splines)){
   x <- t(replicate(n, drop(bs(s, df = 5, int = TRUE) %*% runif(5, min = -1, max = 1))))
}else{
  x <- matrix(rnorm(n*G), ncol = G, nrow = n)
}
x <- scale(x, center = TRUE, scale = FALSE) ## center x per observation point

mu <- 2 + 0.5*z + (1/G*x) %*% sin(s*pi)*5 ## true functions for expectation
sigma <- exp(0.5*z - (1/G*x) %*% cos(s*pi)*2) ## for standard deviation

y <- rnorm(mean = mu, sd = sigma, n = n) ## draw respone y_i ~ N(mu_i, sigma_i)

## save data as list containing s as well 
dat_list <- list(y = y, z = z, x = I(x), s = s)

## model fit with noncyclic algorithm assuming Gaussian location scale model 
m_boost <- FDboostLSS(list(mu = y ~ bols(z, df = 2) + bsignal(x, s, df = 2, knots = 16), 
                           sigma = y ~ bols(z, df = 2) + bsignal(x, s, df = 2, knots = 16)), 
                           timeformula = NULL, data = dat_list, method = "noncyclic")
summary(m_boost)


 if(require(gamboostLSS)){
  ## find optimal number of boosting iterations on a grid in 1:1000
  ## using 5-fold bootstrap
  ## takes some time, easy to parallelize on Linux
  set.seed(123) 
  cvr <- cvrisk(m_boost, folds = cv(model.weights(m_boost[[1]]), B = 5),
                grid = 1:1000, trace = FALSE)
  ## use model at optimal stopping iterations 
  m_boost <- m_boost[mstop(cvr)] ## 832
   
  ## plot smooth effects of functional covariates for mu and sigma
  oldpar <- par(mfrow = c(1,2))
  plot(m_boost$mu, which = 2, ylim = c(0,5))
  lines(s, sin(s*pi)*5, col = 3, lwd = 2)
  plot(m_boost$sigma, which = 2, ylim = c(-2.5,2.5))
  lines(s, -cos(s*pi)*2, col = 3, lwd = 2)
  par(oldpar)
 }

boost-R/FDboost documentation built on Aug. 6, 2023, 7:19 p.m.