R: DEPRECATED: Create MxMLObjective Object

mxMLObjective {OpenMx} | R Documentation

## DEPRECATED: Create MxMLObjective Object

### Description

WARNING: Objective functions have been deprecated as of OpenMx 2.0.

Please use mxExpectationNormal() and mxFitFunctionML() instead. As a temporary workaround, mxMLObjective returns a list containing an MxExpectationNormal object and an MxFitFunctionML object.

mxMLObjective(covariance, means = NA, dimnames = NA, thresholds = NA) All occurrences of

mxMLObjective(covariance, means = NA, dimnames = NA, thresholds = NA)

Should be changed to

mxExpectationNormal(covariance, means = NA, dimnames = NA, thresholds = NA, threshnames = dimnames) mxFitFunctionML(vector = FALSE)

### Arguments

`covariance` | A character string indicating the name of the expected covariance algebra.
`means` | An optional character string indicating the name of the expected means algebra.
`dimnames` | An optional character vector to be assigned to the dimnames of the covariance and means algebras.
`thresholds` | An optional character string indicating the name of the thresholds matrix.

### Details

NOTE: THIS DESCRIPTION IS DEPRECATED. Please change to using mxExpectationNormal and mxFitFunctionML as shown in the example below.

Objective functions are functions for which free parameter values are chosen such that the value of the objective function is minimized. The mxMLObjective function uses full-information maximum likelihood to provide maximum likelihood estimates of free parameters in the algebra defined by the 'covariance' argument given the covariance of an MxData object. The 'covariance' argument takes an MxAlgebra object, which defines the expected covariance of an associated MxData object. The 'dimnames' arguments takes an optional character vector. If this argument is not a single NA, then this vector be assigned to be the dimnames of the means vector, and the row and columns dimnames of the covariance matrix.

mxMLObjective evaluates with respect to an MxData object. The MxData object need not be referenced in the mxMLObjective function, but must be included in the MxModel object. mxMLObjective requires that the 'type' argument in the associated MxData object be equal to 'cov' or 'cov'. The 'covariance' argument of this function evaluates with respect to the 'matrix' argument of the associated MxData object, while the 'means' argument of this function evaluates with respect to the 'vector' argument of the associated MxData object. The 'means' and 'vector' arguments are optional in both functions. If the 'means' argument is not specified (NA), the optional 'vector' argument of the MxData object is ignored. If the 'means' argument is specified, the associated MxData object should specify a 'means' argument of equivalent dimension as the 'means' algebra.

dimnames must be supplied where the matrices referenced by the covariance and means algebras are not themselves labeled. Failure to do so leads to an error noting that the covariance or means matrix associated with the ML objective does not contain dimnames.

To evaluate, place MxMLObjective objects, the mxData object for which the expected covariance approximates, referenced MxAlgebra and MxMatrix objects, and optional MxBounds and MxConstraint objects in an MxModel object. This model may then be evaluated using the mxRun function. The results of the optimization can be found in the 'output' slot of the resulting model, or using the mxEval function.

### Value

Returns a list containing an MxExpectationNormal object and an MxFitFunctionML object.

### References

The OpenMx User's guide can be found at http://openmx.ssri.psu.edu/documentation.

### Examples

    # Create and fit a model using mxMatrix, mxAlgebra, mxExpectationNormal, and mxFitFunctionML

    library(OpenMx)

    # Simulate some data

    x=rnorm(1000, mean=0, sd=1)
    y= 0.5*x + rnorm(1000, mean=0, sd=1)
    tmpFrame <- data.frame(x, y)
    tmpNames <- names(tmpFrame)

    # Define the matrices

    S <- mxMatrix(type = "Full", nrow = 2, ncol = 2, values=c(1,0,0,1),
                  free=c(TRUE,FALSE,FALSE,TRUE), labels=c("Vx", NA, NA, "Vy"), name = "S")
    A <- mxMatrix(type = "Full", nrow = 2, ncol = 2, values=c(0,1,0,0),
                  free=c(FALSE,TRUE,FALSE,FALSE), labels=c(NA, "b", NA, NA), name = "A")
    I <- mxMatrix(type="Iden", nrow=2, ncol=2, name="I")

    # Define the expectation

    expCov <- mxAlgebra(solve(I-A) %*% S %*% t(solve(I-A)), name="expCov")
    expFunction <- mxExpectationNormal(covariance="expCov", dimnames=tmpNames)

    # Choose a fit function

    fitFunction <- mxFitFunctionML()

    # Define the model

    tmpModel <- mxModel(model="exampleModel", S, A, I, expCov, expFunction, fitFunction,
                        mxData(observed=cov(tmpFrame), type="cov", numObs=dim(tmpFrame)[1]))

    # Fit the model and print a summary

    tmpModelOut <- mxRun(tmpModel)
    summary(tmpModelOut)

[Package OpenMx version 2.11.4 Index]