asremlPlus: Augments the Use of 'ASReml-R' in Fitting Mixed Models

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Assists in automating the testing of terms in mixed models when 'asreml' is used to fit the models. The content falls into the following natural groupings: (i) Data, (ii) Object manipulation functions, (iii) Model modification functions, (iv) Model testing functions, (v) Model diagnostics functions, (vi) Prediction production and presentation functions, (vii) Response transformation functions, and (viii) Miscellaneous functions. A history of the fitting of a sequence of models is kept in a data frame. Procedures are available for choosing models that conform to the hierarchy or marginality principle and for displaying predictions for significant terms in tables and graphs. The package 'asreml' provides a computationally efficient algorithm for fitting mixed models using Residual Maximum Likelihood. It can be purchased from 'VSNi' <http://www.vsni.co.uk/> as 'asreml-R', who will supply a zip file for local installation/updating.

Author
Chris Brien <Chris.Brien@unisa.edu.au>.
Date of publication
2016-09-16 12:50:20
Maintainer
Chris Brien <Chris.Brien@unisa.edu.au>
License
GPL (>= 2)
Version
2.0-12
URLs

View on CRAN

Man pages

addrm.terms.asrtests
Adds or removes the specified set terms from either the fixed...
alldiffs
Forms an object of S3-class 'alldiffs' that stores the...
angular
Applies the angular transformation to proportions.
angular.mod
Applies the modified angular transformation to a vector of...
asremlPlus-deprecated
Deprecated Functions in Package asremlPlus
asremlPlus-package
\Sexpr[results=rd,stage=build]{tools:::Rd_package_title("asremlPlus")}
asrtests
Forms an object of S3-class 'asrtests' that stores a fitted...
choose.model.asrtests
Determines the set of significant terms taking into account...
info.crit.asreml
Computes AIC and BIC for a model.
newfit.asreml
refits an asreml model with modified model formula using...
newrcov.asrtests
Fits a new rcov formula using 'asreml'.
num.recode
Recodes the unique values of a vector using the values in a...
permute.square
Permutes the rows and columns of a square matrix.
permute.to.zero.lowertri
Permutes a square matrix until all the lower triangular...
plotvariofaces.asreml
plot empirical variogram faces, including envelopes, from...
power.transform
Perform a combination of a linear and power transformation on...
predictiondiffs.asreml
Uses information in a supplied alldiffs object to forms all...
predictionplot.asreml
This function plots the predictions for a term, possibly with...
predictparallel.asreml
Uses an asreml object and a wald.tab to form the predictions...
pred.present.asreml
This function forms the predictions for each significant term...
print.alldiffs
Prints the values in an 'alldiffs' object in a nice format.
print.asrtests
Prints the values in an 'asrtests' object
recalc.wald.tab.asrtests
Recalculates the denDF, F.inc and P values for a table of...
reml.lrt.asreml
Performs REML likelihood ratio test.
rmboundary.asrtests
Removes any boundary or singular variance components from the...
setvarianceterms.asreml
allows the seting of constraints and initial values for terms...
sig.devn.reparam.asrtests
This function reparamterizes each random (deviations) term...
simulate.asreml
Produce sets of simulated data from a multivariate normal...
testranfix.asrtests
Tests for a single fixed or random term in model fitted using...
testrcov.asrtests
Fits a new rcov formula using 'asreml' and tests whether the...
testswapran.asrtests
Tests, using a REMLRT, whether the difference between current...
variofaces
plot empirical variogram faces, including envelopes, as...
WaterRunoff.dat
Data for an experiment to investigate the quality of water...
Wheat.dat
Data for an experiment to investigate 25 varieties of wheat

Files in this package

asremlPlus
asremlPlus/inst
asremlPlus/inst/NEWS.Rd
asremlPlus/inst/doc
asremlPlus/inst/doc/asremlPlus-manual.pdf
asremlPlus/tests
asremlPlus/tests/testthat.R
asremlPlus/tests/testthat
asremlPlus/tests/testthat/Rplots.pdf
asremlPlus/tests/testthat/testSelection.r
asremlPlus/tests/testthat/testPredictionsPresentation.r
asremlPlus/NAMESPACE
asremlPlus/data
asremlPlus/data/WaterRunoff.dat.rda
asremlPlus/data/Wheat.dat.rda
asremlPlus/R
asremlPlus/R/reml.lrt.r
asremlPlus/R/reml.v20.r
asremlPlus/R/variogram.faces.v2.r
asremlPlus/R/needasreml.R
asremlPlus/R/angular.r
asremlPlus/MD5
asremlPlus/build
asremlPlus/build/partial.rdb
asremlPlus/DESCRIPTION
asremlPlus/man
asremlPlus/man/predictiondiffs.asreml.Rd
asremlPlus/man/testrcov.asrtests.Rd
asremlPlus/man/permute.square.Rd
asremlPlus/man/variofaces.Rd
asremlPlus/man/asrtests.Rd
asremlPlus/man/print.alldiffs.Rd
asremlPlus/man/angular.Rd
asremlPlus/man/pred.present.asreml.Rd
asremlPlus/man/Wheat.dat.Rd
asremlPlus/man/recalc.wald.tab.asrtests.Rd
asremlPlus/man/setvarianceterms.asreml.Rd
asremlPlus/man/predictparallel.asreml.Rd
asremlPlus/man/WaterRunoff.dat.Rd
asremlPlus/man/permute.to.zero.lowertri.Rd
asremlPlus/man/print.asrtests.Rd
asremlPlus/man/asremlPlus-package.Rd
asremlPlus/man/testswapran.asrtests.Rd
asremlPlus/man/plotvariofaces.asreml.Rd
asremlPlus/man/testranfix.asrtests.Rd
asremlPlus/man/info.crit.asreml.Rd
asremlPlus/man/rmboundary.asrtests.Rd
asremlPlus/man/simulate.asreml.Rd
asremlPlus/man/num.recode.Rd
asremlPlus/man/asremlPlus-deprecated.Rd
asremlPlus/man/alldiffs.Rd
asremlPlus/man/choose.model.asrtests.Rd
asremlPlus/man/addrm.terms.asrtests.Rd
asremlPlus/man/reml.lrt.asreml.Rd
asremlPlus/man/sig.devn.reparam.asrtests.Rd
asremlPlus/man/newrcov.asrtests.Rd
asremlPlus/man/predictionplot.asreml.Rd
asremlPlus/man/newfit.asreml.Rd
asremlPlus/man/angular.mod.Rd
asremlPlus/man/power.transform.Rd