OHPL (version 1.4.1)

cv.OHPL: Cross-validation for Ordered Homogeneity Pursuit Lasso

Description

Use cross-validation to help select the optimal number of variable groups and the value of gamma.

Usage

cv.OHPL(
  X.cal,
  y.cal,
  maxcomp,
  gamma = seq(0.1, 0.9, 0.1),
  X.test,
  y.test,
  cv.folds = 5L,
  G = 30L,
  type = c("max", "median"),
  scale = TRUE,
  pls.method = "simpls"
)

Value

A list containing the optimal model, RMSEP, Q2, and other evaluation metrics. Also the optimal number of groups to use in group lasso.

Arguments

X.cal

Predictor matrix (training).

y.cal

Response matrix with one column (training).

maxcomp

Maximum number of components for PLS.

gamma

A vector of the gamma sequence between (0, 1).

X.test

X.test Predictor matrix (test).

y.test

y.test Response matrix with one column (test).

cv.folds

Number of cross-validation folds.

G

Maximum number of variable groups.

type

Find the maximum absolute correlation ("max") or find the median of absolute correlation ("median"). Default is "max".

scale

Should the predictor matrix be scaled? Default is TRUE.

pls.method

Method for fitting the PLS model. Default is "simpls". See the details section in pls::plsr() for all possible options.

Examples

data("wheat")

X <- wheat$x
y <- wheat$protein
n <- nrow(wheat$x)

set.seed(1001)
samp.idx <- sample(1L:n, round(n * 0.7))
X.cal <- X[samp.idx, ]
y.cal <- y[samp.idx]
X.test <- X[-samp.idx, ]
y.test <- y[-samp.idx]

# This could run for a while
if (FALSE) {
cv.fit <- cv.OHPL(
  x, y,
  maxcomp = 6, gamma = seq(0.1, 0.9, 0.1),
  x.test, y.test, cv.folds = 5, G = 30, type = "max"
)
# the optimal G and gamma
cv.fit$opt.G
cv.fit$opt.gamma
}