R/fittedvlm.R

In VGAM: Vector Generalized Linear and Additive Models

# These functions are
# Copyright (C) 1998-2024 T.W. Yee, University of Auckland.
# All rights reserved.












fittedvlm <- function(object,
                      drop = FALSE,
                      type.fitted = NULL,
                      percentiles = NULL,
                      ...) {


  if (is.null(type.fitted) &&
      is.null(percentiles)) {
    answer <- if (drop) {
      if (!is.matrix(object@fitted.values) ||
          !length(object@fitted.values))
        stop("object@fitted.values is not a matrix or is empty")
      if (ncol(object@fitted.values) == 1) {
        c(object@fitted.values)
      } else {
        warning("ncol(object@fitted.values) is not 1")
        c(object@fitted.values)
      }
    } else {
      object@fitted.values
    }
  } else {
    linkinv <- object@family@linkinv
    new.extra <- object@extra


    if (length(percentiles)) {
      new.extra$percentiles <- percentiles
    }
    if (length(type.fitted)) {
      new.extra$type.fitted <- type.fitted
    }

    answer <- linkinv(eta = predict(object), extra = new.extra)
    linkinv <- object@family@linkinv

    answer <- if (drop) {
      c(answer)
    } else {
      as.matrix(answer)
    }
  }

  if (length(answer) && length(object@na.action)) {
    napredict(object@na.action[[1]], answer)
  } else {
    answer
  }
}









setMethod("fitted.values",  "vlm",
    function(object, ...)
    fittedvlm(object, ...))

setMethod("fitted",  "vlm",
    function(object, ...)
    fittedvlm(object, ...))

setMethod("fitted.values",  "vglm",
    function(object, ...)
    fittedvlm(object, ...))

setMethod("fitted",  "vglm",
    function(object, ...)
    fittedvlm(object, ...))






predictors.vglm <- function(object, matrix = TRUE, ...) {
  answer <- if (matrix) {
    object@predictors
  }  else {
    if (!is.matrix(object@predictors) || !length(object@predictors))
      stop("object@predictors is not a matrix or is empty")

    if (ncol(object@predictors) == 1) {
      c(object@predictors)
    } else {
      warning("ncol(object@predictors) is not 1")
      c(object@predictors)
      }
  }

  if (length(answer) && length(object@na.action)) {
    napredict(object@na.action[[1]], answer)
  } else {
    answer
  }
}


if (!isGeneric("predictors"))
    setGeneric("predictors",
      function(object, ...)
        standardGeneric("predictors"))


setMethod("predictors",  "vglm",
    function(object, ...)
    predictors.vglm(object, ...))