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dae (version 3.2.35)

Functions Useful in the Design and ANOVA of Experiments

Description

The content falls into the following groupings: (i) Data, (ii) Factor manipulation functions, (iii) Design functions, (iv) ANOVA functions, (v) Matrix functions, (vi) Projector and canonical efficiency functions, and (vii) Miscellaneous functions. There is a vignette describing how to use the design functions for randomizing and assessing designs available as a vignette called 'DesignNotes'. The ANOVA functions facilitate the extraction of information when the 'Error' function has been used in the call to 'aov'. The package 'dae' can also be installed from .

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Install

install.packages('dae')

Monthly Downloads

1,360

Version

3.2.35

License

GPL (>= 2)

Maintainer

Chris Brien

Last Published

July 9th, 2026

Functions in dae (3.2.35)

Deprecated Functions in Package dae

correct.degfree

Check the degrees of freedom in an object of class projector

tools:::Rd_package_title("dae")

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

Examines the relationship between the eigenvectors for two decompositions

blockboundaryPlot

This function plots a block boundary on a plot produced by designPlot.

Convert a factor to a numeric vector, possibly centering or scaling the values

The intermittent, randomly-presented, startup tips.

Sensory3Phase.dat

Data for the three-phase sensory evaluation experiment in Brien, C.J. and Payne, R.W. (1999)

as.data.frame.pstructure

Coerces a pstructure.object to a data.frame.

designAmeasures

Calculates the average variance of pairwise differences from the variance matrix for predictions

designLatinSqrSys

Generate a systematic plan for a Latin Square design

designRandomize

Randomize allocated to recipient factors to produce a layout for an experiment

Plots labels on two-way grids of coloured cells using ggplot2 to represent an experimental design

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.

designBlocksGGPlot

Adds block boundaries to a plot produced by designGGPlot.

A graphical representation of an experimental design using labels stored in a matrix.

Degrees of freedom extraction and replacement

designPlotlabels

Plots labels on a two-way grid using ggplot2

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.

Expands the values in table to a vector

efficiency.criteria

Computes efficiency criteria from a set of efficiency factors

forms the ar1 correlation matrix for a (generalized) factor

Extracts the canonical efficiency factors from a pcanon.object or a p2canon.object.

Computes the detectable difference for an experiment

Extract the elements of an array specified by the subscripts

Generate all combinations of the levels of the supplied factors, without replication

Generate all combinations of several factors and, optionally, replicate them

Divides a factor into several separate factors

Combines several factors into one

creates a factor, the nested factor, whose values are generated within those of the factor nesting.fac

computes the projection matrix that produces means

Forms a two-level factor from a logical object.

Match, for each combination of a set of columns in x, the row that has the same combination in table

Cleaves a single factor, each of whose levels has delimited strings, into several factors using the separated strings.

Splits a factor whose levels consist of several delimited strings into several factors

Recasts a factor by modifying the values in the factor vector and/or the levels attribute, possibly combining some levels into a single level.

Recodes factor levels using values in a vector. The values in the vector do not have to be unique.

computes the summation matrix that produces sums corresponding to a (generalized) factor

fac.multinested

Creates several factors, one for each level of the nesting factor and each of whose values are either generated within those of a level of the nesting factor or using the values of the nested factor within the levels of the nesting factor.

Tests whether all elements are approximately zero

forms the variance matrix for the variance component of a (generalized) factor

Calcuates the harmonic mean.

Gets the value of daeRNGkind for the package dae from the daeEnv environment

makeLevsPadNums

make a set of levels that consist of a prefix combined with padded numeric values

Tests whether an object is a valid object of class projector

Extract the fitted values for a fitted model

get.daeTolerance

Gets the value of daeTolerance for the package dae

interaction.ABC.plot

Plots an interaction plot for three factors

Forms an ar2 correlation matrix

Forms a correlation matrix in which all correlations have the same value.

Forms a general correlation matrix

Forms a square matrix of ones

Forms a unit matrix

Form a banded matrix from a vector of values

Forms an ma2 correlation matrix

Forms an ar3 correlation matrix

Computes the generalized inverse of a matrix

Forms an ma1 correlation matrix

Extract the fitted values for a fitted model from an aovlist object

Forms an arma correlation matrix

Forms an ar1 correlation matrix

Extracts the marginality matrix (matrices) from a pstructure.object or a pcanon.object.

Calculates the variance matrix of the random effects for a natural cubic smoothing spline

Calculates the variances of a set of predicted effects from a mixed model

Calculates the variances of a set of predicted effects from a mixed model, based on supplied matrices or formulae.

Forms an sar correlation matrix

Computes the power for an experiment

Forms an exponential correlation matrix

Forms an exponential correlation matrix

Forms the direct sum of a list of matrices

Forms the direct product of two matrices

computes the projection matrix that produces means

Calculates the variance matrix for the random effects from a mixed model, based on a supplied formula or a matrix.

Description of a pcanon object

Description of a p2canon object

porthogonalize.list

Takes a list of projectors and constructs a pstructure.object that includes projectors, each of which has been orthogonalized to all projectors preceding it in the list.

Forms an sar2 correlation matrix

Computes the number of replicates for an experiment

Converts the first two levels of a factor into the numeric values -1 and +1

print.summary.pcanon

Prints the values in an summary.pcanon object

Create projectors

print.summary.p2canon

Prints the values in an summary.p2canon object

print.pstructure

Prints a pstructure.object

print.projector

Print projectors

Print an aliasing data.frame

proj2.efficiency

Computes the canonical efficiency factors for the joint decomposition of two projectors

projector-class

Class projector

Compute the projection and Residual operators for two, possibly nonorthogonal, projectors

Canonical efficiency factors and eigenvectors in joint decomposition of two projectors

Sets the values of daeRNGkind for the package dae in the daeEnv environment

generates a vector of random values from a multivariate normal distribution

pstructure.formula

Takes a formula and constructs a pstructure.object that includes the orthogonalized projectors for the terms in a formula

Replicate the rows of a data.frame by repeating each row consecutively and/or repeating all rows as a group

pstructure.object

Description of a pstructure object

Extract the residuals for a fitted model

A canonical analysis of the relationships between two sets of projectors

residuals.aovlist

Extract the residuals from an aovlist object

set.daeTolerance

Sets the values of daeTolerance for the package dae

summary.p2canon

Summarize a canonical analysis of the relationships between two sets of projectors

Extract Yates effects

Generate paper strength values

Summarizes the anatomy of a design, being the decomposition of the sample space based on its canonical analysis, as produced by designAnatomy

projs.combine.p2canon

Extract, from a p2canon object, the projectors that give the combined canonical decomposition

Half or full normal plot of Yates effects

Methods for Function show in Package dae

Performs Tukey's one-degree-of-freedom-test-for-nonadditivity

A design for one of the growth cabinets in an experiment with 50 lines and 4 harvests

ABC.Interact.dat

Randomly generated set of values indexed by three factors

Data for a balanced incomplete block experiment

Data for an experiment with rows and columns from Williams (2002)

Data for an experiment to investigate the effects of grazing patterns on pasture composition

Exp249.munit.des

Systematic, main-unit design for an experiment to be run in a greenhouse

McIntyreTMV.dat

The design and data from McIntyre's (1955) two-phase experiment

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

LatticeSquare_t49.des

A Lattice square design for 49 treatments

Data for a 2^4 factorial experiment