Fits Linear Mixed Models using REML

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Documentation for package ‘asreml’ version 4.2.0.482

• DESCRIPTION file.
• User guides, package vignettes and other documentation.

Help Pages

A B C D E F G H I K L M N O P R S T U V W

-- A --

aexp	Metric-based variance models in two dimensions
aexph	Metric-based variance models in two dimensions
aexpv	Metric-based variance models in two dimensions
agau	Metric-based variance models in two dimensions
agauh	Metric-based variance models in two dimensions
agauv	Metric-based variance models in two dimensions
ainverse	Calculate an inverse relationship matrix
and	Model term constructor functions
ante	General structure variance models
ar1	Time series type correlation and variance structures.
ar1h	Time series type correlation and variance structures.
ar1v	Time series type correlation and variance structures.
ar2	Time series type correlation and variance structures.
ar2h	Time series type correlation and variance structures.
ar2v	Time series type correlation and variance structures.
ar3	Time series type correlation and variance structures.
ar3h	Time series type correlation and variance structures.
ar3v	Time series type correlation and variance structures.
arma	Time series type correlation and variance structures.
armah	Time series type correlation and variance structures.
armav	Time series type correlation and variance structures.
asreml	Mixed effects linear models
asreml.license.activate	Activates an 'asreml' license
asreml.license.deactivate	Deactivates the current 'asreml' license
asreml.license.offline	Request an 'asreml' license to be used offline
asreml.license.online	Request an 'asreml' license to be used online
asreml.license.status	Check the status of the 'asreml' license
asreml.object	This (S3) class object contains a fitted linear mixed model from the 'asreml()' function
asreml.options	Set less frequently used 'asreml()' options
asreml.read.table	Read in a data frame
asr_aexp	Metric-based variance models in two dimensions
asr_aexph	Metric-based variance models in two dimensions
asr_aexpv	Metric-based variance models in two dimensions
asr_agau	Metric-based variance models in two dimensions
asr_agauh	Metric-based variance models in two dimensions
asr_agauv	Metric-based variance models in two dimensions
asr_and	Model term constructor functions
asr_ante	General structure variance models
asr_ar1	Time series type correlation and variance structures.
asr_ar1h	Time series type correlation and variance structures.
asr_ar1v	Time series type correlation and variance structures.
asr_ar2	Time series type correlation and variance structures.
asr_ar2h	Time series type correlation and variance structures.
asr_ar2v	Time series type correlation and variance structures.
asr_ar3	Time series type correlation and variance structures.
asr_ar3h	Time series type correlation and variance structures.
asr_ar3v	Time series type correlation and variance structures.
asr_arma	Time series type correlation and variance structures.
asr_armah	Time series type correlation and variance structures.
asr_armav	Time series type correlation and variance structures.
asr_at	Model term constructor functions
asr_C	Model term constructor functions
asr_chol	General structure variance models
asr_cholc	General structure variance models
asr_cir	Metric-based variance models in two dimensions
asr_cirh	Metric-based variance models in two dimensions
asr_cirv	Metric-based variance models in two dimensions
asr_con	Model term constructor functions
asr_cor	General structure variance models
asr_corb	General structure variance models
asr_corbh	General structure variance models
asr_corbv	General structure variance models
asr_corg	General structure variance models
asr_corgh	General structure variance models
asr_corgv	General structure variance models
asr_corh	General structure variance models
asr_corv	General structure variance models
asr_dev	Model term constructor functions
asr_diag	General structure variance models
asr_dsum	Model term constructor functions
asr_exp	Metric-based variance models in one dimension.
asr_exph	Metric-based variance models in one dimension.
asr_expv	Metric-based variance models in one dimension.
asr_fa	General structure variance models
asr_facv	General structure variance models
asr_gau	Metric-based variance models in one dimension.
asr_gauh	Metric-based variance models in one dimension.
asr_gauv	Metric-based variance models in one dimension.
asr_grp	Model term constructor functions
asr_id	Default identity variance models
asr_ide	Known variance structures
asr_idh	Default identity variance models
asr_idv	Default identity variance models
asr_ieuc	Metric-based variance models in two dimensions
asr_ieuch	Metric-based variance models in two dimensions
asr_ieucv	Metric-based variance models in two dimensions
asr_iexp	Metric-based variance models in two dimensions
asr_iexph	Metric-based variance models in two dimensions
asr_iexpv	Metric-based variance models in two dimensions
asr_igau	Metric-based variance models in two dimensions
asr_igauh	Metric-based variance models in two dimensions
asr_igauv	Metric-based variance models in two dimensions
asr_ilv	Metric-based variance models in two dimensions
asr_ilvh	Metric-based variance models in two dimensions
asr_ilvv	Metric-based variance models in two dimensions
asr_leg	Model term constructor functions
asr_lin	Model term constructor functions
asr_lvr	Metric-based variance models in one dimension.
asr_lvrh	Metric-based variance models in one dimension.
asr_lvrv	Metric-based variance models in one dimension.
asr_ma	Model term constructor functions
asr_ma1	Time series type correlation and variance structures.
asr_ma1h	Time series type correlation and variance structures.
asr_ma1v	Time series type correlation and variance structures.
asr_ma2	Time series type correlation and variance structures.
asr_ma2h	Time series type correlation and variance structures.
asr_ma2v	Time series type correlation and variance structures.
asr_mbf	Model term constructor functions
asr_mtrn	Matern variance structure
asr_mtrnh	Matern variance structure
asr_mtrnv	Matern variance structure
asr_own	User-defined variance models or structures
asr_pol	Model term constructor functions
asr_pow	Model term constructor functions
asr_ric	Known variance structures
asr_rr	General structure variance models
asr_sar	Time series type correlation and variance structures.
asr_sar2	Time series type correlation and variance structures.
asr_sar2h	Time series type correlation and variance structures.
asr_sar2v	Time series type correlation and variance structures.
asr_sarh	Time series type correlation and variance structures.
asr_sarv	Time series type correlation and variance structures.
asr_sfa	General structure variance models
asr_sph	Metric-based variance models in two dimensions
asr_sphh	Metric-based variance models in two dimensions
asr_sphv	Metric-based variance models in two dimensions
asr_spl	Model term constructor functions
asr_str	Variance structure spanning several model terms
asr_us	General structure variance models
asr_varioGram	Empirical variogram
asr_vm	Known variance structures
asuv	Univariate data frame
asv.asreml	Approximate stratum variances
at	Model term constructor functions

-- B --

binnor

Footrot scores on lambs

-- C --

C	Model term constructor functions
chkPed	Check a pedigree
chol	General structure variance models
cir	Metric-based variance models in two dimensions
cirh	Metric-based variance models in two dimensions
cirv	Metric-based variance models in two dimensions
coef	Extract model coefficients
coef.asreml	Extract model coefficients
complex_vs	Variance structure spanning several model terms
con	Model term constructor functions
coop	Coopworth lamb data
cor	General structure variance models
corb	General structure variance models
corbh	General structure variance models
corbv	General structure variance models
corg	General structure variance models
corgh	General structure variance models
corgv	General structure variance models
corh	General structure variance models
corv	General structure variance models

-- D --

dev	Model term constructor functions
diag	General structure variance models
dsum	Model term constructor functions

-- E --

ebay	Ebay bids
exp	Metric-based variance models in one dimension.
exph	Metric-based variance models in one dimension.
expv	Metric-based variance models in one dimension.

-- F --

fa	General structure variance models
fa.init	Factor analytic initial values
facv	General structure variance models
fitted.asreml	Extract fitted values

-- G --

gau	Metric-based variance models in one dimension.
gauh	Metric-based variance models in one dimension.
gauv	Metric-based variance models in one dimension.
general_vs	General structure variance models
grass	Plant height disease study (multivariate form)
grassUV	Plant height disease study (univariate form)
grp	Model term constructor functions

-- H --

harvey	Weights of Hereford cattle
harvey.ped	Pedigree of Hereford cattle
harveyg.ped	Pedigree of Hereford cattle (with genetic groups)

-- I --

id	Default identity variance models
ide	Known variance structures
idh	Default identity variance models
idv	Default identity variance models
ieuc	Metric-based variance models in two dimensions
ieuch	Metric-based variance models in two dimensions
ieucv	Metric-based variance models in two dimensions
iexp	Metric-based variance models in two dimensions
iexph	Metric-based variance models in two dimensions
iexpv	Metric-based variance models in two dimensions
igau	Metric-based variance models in two dimensions
igauh	Metric-based variance models in two dimensions
igauv	Metric-based variance models in two dimensions
ilv	Metric-based variance models in two dimensions
ilvh	Metric-based variance models in two dimensions
ilvv	Metric-based variance models in two dimensions
indep_vs	Default identity variance models

-- K --

known_vs

Known variance structures

-- L --

lamb	Footrot counts on lambs
leg	Model term constructor functions
Levels	Combine factor levels
lin	Model term constructor functions
lrt.asreml	REML likelihood ratio test (REMLRT)
lvr	Metric-based variance models in one dimension.
lvrh	Metric-based variance models in one dimension.
lvrv	Metric-based variance models in one dimension.

-- M --

ma	Model term constructor functions
ma1	Time series type correlation and variance structures.
ma1h	Time series type correlation and variance structures.
ma1v	Time series type correlation and variance structures.
ma2	Time series type correlation and variance structures.
ma2h	Time series type correlation and variance structures.
ma2v	Time series type correlation and variance structures.
matern_vs	Matern variance structure
mbf	Model term constructor functions
meff.asreml	Calculate marker effects
met	Multi-environmental wheat data from 8 locations with spatial coordinates
metric-1D_vs	Metric-based variance models in one dimension.
metric-2D_vs	Metric-based variance models in two dimensions
model_functions	Model term constructor functions
mtrn	Matern variance structure
mtrnh	Matern variance structure
mtrnv	Matern variance structure

-- N --

na.method	Missing value action for 'asreml' data frames
naf	Barley study (naf)
naf31H	Marker scores barley study (naf)
naf32H	Marker scores barley study (naf)
nassau	Loblolly pine clone trial
nassau.grm	Loblolly genetic relationship matrix (GRM)
nassau.snp	Loblolly genetic marker scores
nin89	Wheat advanced breeding trial

-- O --

oats	Oats variety-nitrogen factorial study
orange	Orange tree circumference
own	User-defined variance models or structures
owt	Orange wether wool trial

-- P --

pixel	Repeated CT scans on dogs
plot	Plot diagnostics for an 'asreml' object
plot.asreml	Plot diagnostics for an 'asreml' object
plot.varioGram	Plot an empirical variogram
plot_coef.asreml	Plot model coefficients
pol	Model term constructor functions
pow	Model term constructor functions
predict.asreml	Predict linear functions of model effects

-- R --

rats	Reproductive study on rats
resid	Extract model residuals
residuals.asreml	Extract model residuals
ric	Known variance structures
rice	Rice resistance to bloodworms (univariate form)
riceMV	Rice resistance to bloodworms (multivariate form)
rr	General structure variance models

-- S --

sar	Time series type correlation and variance structures.
sar2	Time series type correlation and variance structures.
sar2h	Time series type correlation and variance structures.
sar2v	Time series type correlation and variance structures.
sarh	Time series type correlation and variance structures.
sarv	Time series type correlation and variance structures.
sfa	General structure variance models
shf	Slate Hall farm wheat variety trial
sph	Metric-based variance models in two dimensions
sphh	Metric-based variance models in two dimensions
sphv	Metric-based variance models in two dimensions
spl	Model term constructor functions
splinek	Spline knot points
str	Variance structure spanning several model terms
Subset	Subset a factor
summary	Summarize an 'asreml' object
summary.asreml	Summarize an 'asreml' object

-- T --

time_series_vs	Time series type correlation and variance structures.
tr.asreml	REML convergence trace for 'asreml' objects.

-- U --

Units	Unit level numbers
update	Update an 'asreml' model fit
update.asreml	Update an 'asreml' model fit
us	General structure variance models
user_vs	User-defined variance models or structures

-- V --

varioGram.asreml	Empirical variogram constructor method
vcm.lm	Specify constraints among variance components
vm	Known variance structures
voltage	Voltage regulators
vpredict	Functions of variance components

-- W --

wald.asreml	Wald test statistics constructor
wheat	Wheat variety trial
wolfinger	Growth curve study on rats