automultinomial: Autologistic and Automultinomial Spatial Regression and Variable Selection
Version 1.0.0

Contains functions for autologistic variable selection and parameter estimation for spatially correlated categorical data (including k>2). The main function is MPLE. Capable of fitting the centered autologistic model described in Caragea and Kaiser (2009), as well as the traditional autologistic model of Besag (1974).

Browse man pages Browse package API and functions Browse package files

AuthorStephen Berg [aut, cre], Rao Fu [aut], Jun Zhu [ths]
Date of publication2016-10-05 09:29:49
MaintainerStephen Berg <saberg2@wisc.edu>
LicenseGPL-2 | GPL-3
Version1.0.0
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("automultinomial")

Man pages

adjMat: Spatial adjacency matrix
centeredLogLikelihood: Centered model log pseudolikelihood
centeredLogLikGrad: Centered model gradient
centeredLogLikHess: Centered model hessian
chol_psd: Cholesky decomposition for positive semidefinite matrix
criterionFit: Minimize criterion (AIC or BIC)
indsFunction: Get indices of relevant component of theta matrix
JMatrixCentered: J matrix for centered variance estimate
JMatrixUncentered: Uncentered J matrix
logLikelihood: Compute log likelihood
MPLE: Logistic autoregression
MPLEinternal: Multinomial regression
multinomialBCD: Block coordinate descent
multProb: Multinomial probabilities
plotGrid: Visualize response values on a grid
sandwichVariance: Compute sandwich variance estimate
significanceTest: Significance tests for autologistic/automultinomial models
simulateData: Simulate data
totalX: Add columns to X matrix
uncenteredLogLikGrad: Uncentered gradient
uncenteredLogLikHess: Uncentered hessian
unStandardize: Unstandardize coefficients

Functions

JMatrixCentered Man page Source code
JMatrixUncentered Man page Source code
MPLE Man page Source code
MPLEinternal Man page Source code
adjMat Man page Source code
boundaryIndices Source code
centeredLogLikGrad Man page Source code
centeredLogLikHess Man page Source code
centeredLogLikelihood Man page Source code
chol_psd Man page Source code
criterionFit Man page Source code
expSumGradient Source code
expSumHessian Source code
getArrayInd Source code
getVecInd Source code
indsFunction Man page Source code
logLikelihood Man page Source code
multProb Man page Source code
multinomialBCD Man page Source code
plotGrid Man page Source code
rowPvalues Source code
sandwichVariance Man page Source code
significanceTest Man page Source code
simulateData Man page Source code
slotUpper_to_slotLower Source code
toConstraint Source code
toConstraintDerivative Source code
totalX Man page Source code
traceGrad Source code
traceHessian Source code
unStandardize Man page Source code
uncenteredLogLikGrad Man page Source code
uncenteredLogLikHess Man page Source code
varianceTransformation Source code

Files

tests
tests/tests_Sub
tests/tests_Sub/testthat.R
NAMESPACE
R
R/totalX.R
R/logLikelihood.R
R/plotGrid.R
R/sourceFunction.R
R/significanceTest.R
R/centeredGradient.R
R/JMatrixUncentered.R
R/centeredHessian.R
R/multinomialGradient.R
R/multinomialBCD.R
R/MPLEinternal.R
R/indsFunction.R
R/criterionFit.R
R/multProb.R
R/unStandardize.R
R/sandwichVariance.R
R/chol_psd.R
R/adjMat.R
R/MPLE.R
R/centeredLogLikelihood.R
R/simulateData.R
R/multinomialHessian.R
R/JMatrixCentered.R
MD5
DESCRIPTION
man
man/uncenteredLogLikGrad.Rd
man/totalX.Rd
man/MPLEinternal.Rd
man/uncenteredLogLikHess.Rd
man/indsFunction.Rd
man/centeredLogLikelihood.Rd
man/JMatrixUncentered.Rd
man/plotGrid.Rd
man/sandwichVariance.Rd
man/MPLE.Rd
man/multinomialBCD.Rd
man/unStandardize.Rd
man/adjMat.Rd
man/centeredLogLikHess.Rd
man/multProb.Rd
man/chol_psd.Rd
man/centeredLogLikGrad.Rd
man/logLikelihood.Rd
man/significanceTest.Rd
man/simulateData.Rd
man/criterionFit.Rd
man/JMatrixCentered.Rd
automultinomial documentation built on May 19, 2017, 9:25 a.m.