Functions Useful in the Design and ANOVA of Experiments


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Documentation for package ‘dae’ version 3.1-37

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A B C D E F G H I L M N O P Q R S T Y Z

dae-package Functions Useful in the Design and ANOVA of Experiments

-- A --

ABC.Interact.dat Randomly generated set of values indexed by three factors
Ameasures Deprecated Functions in Package dae
as.data.frame.pstructure Coerces a pstructure.object to a data.frame.
as.numfac Convert a factor to a numeric vector

-- B --

BIBDWheat.dat Data for a balanced incomplete block experiment
blockboundary.plot Deprecated Functions in Package dae
blockboundaryPlot This function plots a block boundary on a plot produced by 'designPlot'.

-- C --

Cabinet1.des A design for one of the growth cabinets in an experiment with 50 lines and 4 harvests
Casuarina.dat Data for an experiment with rows and columns from Williams (2002)
coerce-method Class projector
coerce<--method Class projector
correct.degfree Check the degrees of freedom in an object of class projector

-- D --

dae Functions Useful in the Design and ANOVA of Experiments
dae-deprecated Deprecated Functions in Package dae
daeTips The intermittent, randomly-presented, startup tips.
decomp.relate Examines the relationship between the eigenvectors for two decompositions
degfree Degrees of freedom extraction and replacement
degfree<- Degrees of freedom extraction and replacement
design.plot Deprecated Functions in Package dae
designAmeasures Calculates the average variance of pairwise differences from the variance matrix for predictions
designAnatomy Given the layout for a design, obtain its anatomy via the canonical analysis of its projectors to show the confounding and aliasing inherent in the design.
designBlocksGGPlot Adds block boundaries to a plot produced by 'designGGPlot'.
designGGPlot Plots labels on two-way grids of coloured cells using 'ggplot2'
designLatinSqrSys Generate a systematic plan for a Latin Square design
designPlot A graphical representation of an experimental design using labels stored in a matrix.
designPlotlabels Plots labels on a two-way grid using 'ggplot2'
designRandomize Randomize allocated to recipient factors to produce a layout for an experiment
designTwophaseAnatomies Given the layout for a design and three structure formulae, obtain the anatomies for the (i) two-phase, (ii) first-phase, (iii) cross-phase, treatments, and (iv) combined-units designs.
detect.diff Computes the detectable difference for an experiment

-- E --

efficiencies Extracts the canonical efficiency factors from a 'pcanon.object' or a 'p2canon.object'.
efficiencies.p2canon Extracts the canonical efficiency factors from a 'pcanon.object' or a 'p2canon.object'.
efficiencies.pcanon Extracts the canonical efficiency factors from a 'pcanon.object' or a 'p2canon.object'.
efficiency.criteria Computes efficiency criteria from a set of efficiency factors
elements Extract the elements of an array specified by the subscripts
Exp249.munit.des Systematic, main-unit design for an experiment to be run in a greenhouse
extab Expands the values in table to a vector

-- F --

fac.ar1mat forms the ar1 correlation matrix for a (generalized) factor
fac.combine Combines several factors into one
fac.divide Divides a factor into several individual factors
fac.gen Generate all combinations of several factors and, optionally, replicate them
fac.match Match, for each combination of a set of columns in 'x', the row that has the same combination in 'table'
fac.meanop computes the projection matrix that produces means
fac.multinested Creates several factors, one for each level of nesting.fac and each of whose values are either generated within those of a level of nesting.fac or using the values of nested.fac within a levels of nesting.fac.
fac.nested creates a factor, the nested factor, whose values are generated within those of the factor nesting.fac
fac.recode Recodes factor 'levels' using values in a vector. The values in the vector do not have to be unique.
fac.sumop computes the summation matrix that produces sums corresponding to a (generalized) factor
fac.uselogical Forms a two-level 'factor' from a 'logical' object.
fac.vcmat forms the variance matrix for the variance component of a (generalized) factor
Fac4Proc.dat Data for a 2^4 factorial experiment
fitted Extract the fitted values for a fitted model from an aovlist object
fitted.aovlist Extract the fitted values for a fitted model from an aovlist object
fitted.errors Extract the fitted values for a fitted model

-- G --

get.daeTolerance Gets the value of daeTolerance for the package dae

-- H --

harmonic.mean Calcuates the harmonic mean.

-- I --

interaction.ABC.plot Plots an interaction plot for three factors
is.allzero Tests whether all elements are approximately zero
is.projector Tests whether an object is a valid object of class projector

-- L --

LatticeSquare_t49.des A Lattice square design for 49 treatments

-- M --

marginality Extracts the marginality matrix (matrices) from a 'pstructure.object' or a 'pcanon.object'.
marginality.pcanon Extracts the marginality matrix (matrices) from a 'pstructure.object' or a 'pcanon.object'.
marginality.pstructure Extracts the marginality matrix (matrices) from a 'pstructure.object' or a 'pcanon.object'.
mat.ar1 Forms an ar1 correlation matrix
mat.ar2 Forms an ar2 correlation matrix
mat.ar3 Forms an ar3 correlation matrix
mat.arma Forms an arma correlation matrix
mat.banded Form a banded matrix from a vector of values
mat.dirprod Forms the direct product of two matrices
mat.dirsum Forms the direct sum of a list of matrices
mat.exp Forms an exponential correlation matrix
mat.gau Forms an exponential correlation matrix
mat.I Forms a unit matrix
mat.J Forms a square matrix of ones
mat.ma1 Forms an ma1 correlation matrix
mat.ma2 Forms an ma2 correlation matrix
mat.ncssvar Calculates the variance matrix of the random effects for a natural cubic smoothing spline
mat.random Calculates the variance matrix for the random effects from a mixed model, based on a supplied formula or a matrix.
mat.sar Forms an sar correlation matrix
mat.sar2 Forms an sar2 correlation matrix
mat.Vpred Calculates the variances of a set of predicted effects from a mixed model
mat.Vpredicts Calculates the variances of a set of predicted effects from a mixed model, based on supplied matrices or formulae.
McIntyreTMV.dat The design and data from McIntyre's (1955) two-phase experiment
meanop computes the projection matrix that produces means
mpone Converts the first two levels of a factor into the numeric values -1 and +1

-- N --

no.reps Computes the number of replicates for an experiment

-- O --

Oats.dat Data for an experiment to investigate nitrogen response of 3 oats varieties

-- P --

p2canon.object Description of a p2canon object
pcanon.object Description of a pcanon object
power.exp Computes the power for an experiment
print-method Print projectors
print.aliasing Print an aliasing data.frame
print.projector Print projectors
print.pstructure Prints a pstructure.object
print.summary.p2canon Prints the values in an 'summary.p2canon' object
print.summary.pcanon Prints the values in an 'summary.pcanon' object
proj2.combine Compute the projection and Residual operators for two, possibly nonorthogonal, projectors
proj2.decomp Deprecated Functions in Package dae
proj2.efficiency Computes the canonical efficiency factors for the joint decomposition of two projectors
proj2.eigen Canonical efficiency factors and eigenvectors in joint decomposition of two projectors
proj2.ops Deprecated Functions in Package dae
projector Create projectors
projector-class Class projector
projs.2canon A canonical analysis of the relationships between two sets of projectors
projs.canon Deprecated Functions in Package dae
projs.combine.p2canon Extract, from a p2canon object, the projectors that give the combined canonical decomposition
projs.structure Deprecated Functions in Package dae
pstructure Takes a formula and constructs a 'pstructure.object' that includes the orthogonalized projectors for the terms in a formula
pstructure.formula Takes a formula and constructs a 'pstructure.object' that includes the orthogonalized projectors for the terms in a formula
pstructure.object Description of a pstructure object

-- Q --

qqyeffects Half or full normal plot of Yates effects

-- R --

rep.data.frame Replicate the rows of a data.frame by repeating each row consecutively and/or repeating all rows as a group
resid.errors Extract the residuals for a fitted model
residuals Extract the residuals from an aovlist object
residuals.aovlist Extract the residuals from an aovlist object
rmvnorm generates a vector of random values from a multivariate normal distribution

-- S --

Sensory3Phase.dat Data for the three-phase sensory evaluation experiment in Brien, C.J. and Payne, R.W. (1999)
Sensory3PhaseShort.dat Data for the three-phase sensory evaluation experiment in Brien, C.J. and Payne, R.W. (1999)
set.daeTolerance Sets the values of daeTolerance for the package dae
show-method Methods for Function show in Package dae
show-methods Methods for Function show in Package dae
SPLGrass.dat Data for an experiment to investigate the effects of grazing patterns on pasture composition
strength Generate paper strength values
summary-method Summarize a canonical analysis of the relationships between two sets of projectors
summary-method Summarizes the anatomy of a design, being the decomposition of the sample space based on its canonical analysis, as produced by designAnatomy
summary.p2canon Summarize a canonical analysis of the relationships between two sets of projectors
summary.pcanon Summarizes the anatomy of a design, being the decomposition of the sample space based on its canonical analysis, as produced by designAnatomy

-- T --

tukey.1df Performs Tukey's one-degree-of-freedom-test-for-nonadditivity

-- Y --

yates.effects Extract Yates effects

-- Z --

Zncsspline Calculates the design matrix for fitting the random component of a natural cubic smoothing spline