Practial Data Analysis for Designed Experiments

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Documentation for package `pda' version 1.2.8

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

-- A --

all.covars determine names of all factors, covariates, predictors (factors & covariates)or response used in model fit
all.factors determine names of all factors, covariates, predictors (factors & covariates)or response used in model fit
all.predictors determine names of all factors, covariates, predictors (factors & covariates)or response used in model fit

-- B --

Bacteria Bacteria virus in plant sap
BactRoom Bacteria Virus in Plant Sap by Room
Berry Cranberry Energy Balance
box.fig draw boxplot figure at specified position
branch Branch Plot for Nested Effects
BrandX Preference for Brand X Detergent
Brassica Brassica Response to Herbicide
Budworm Counting Data: Sex Response to Dose
burst Branch Plot for Nested Effects

-- C --

ci.plot Generic Interaction Plots of Response with Interval Bars
ci.plot.default Interaction Plots of Response with Interval Bars
ci.plot.lm Linear Model-driven Interaction Plots of Response with Interval Bars
ci.plot.lme Linear Model-driven Interaction Plots of Response with Interval Bars
ci.plot.lmer Linear Model-driven Interaction Plots of Response with Interval Bars
ci.width utility functions for ci.plot
circle draw circles and ellipses
ClonCrit Cloning virus in plant sap
Cloning Cloning virus in plant sap
Count Counting Data Examples

-- D --

df.resid residual degrees of freedom
Diet Diet Effect on Dry Matter Intake
Drink Water Temperature Effect on Cow Drinking
Drying Water Temperature Effect on Cow Dryinging

-- E --

effect.fit Effects Plot
effect.plot Effects Plot
ellipse draw circles and ellipses

-- F --

factor.labels determine labels for all factors used in model fit
Feed Feed Intake and Weight Gain
Forage Forage Effect on Dry Matter Intake
ForCow Forage Effect on Dry Matter Intake

-- G --

Growth Growth Medium for Plant Tissue
GrowthCount Counting Data for Growth Medium

-- H --

Hardy Cold Hardiness Adaptation

-- I --

int.plot Generic Interaction Plots of Response with Interval Bars
int.plot.default Interaction Plots of Response with Interval Bars
int.plot.lm Linear Model-driven Interaction Plots of Response with Interval Bars
int.plot.lme Linear Model-driven Interaction Plots of Response with Interval Bars
int.plot.lmer Linear Model-driven Interaction Plots of Response with Interval Bars

-- L --

lsd.bar Standard Error and Fisher's LSD Bars for Interaction Plots
lsd.plot Generic Interaction Plots of Response with Interval Bars
lsd.plot.lm Linear Model-driven Interaction Plots of Response with Interval Bars
lsmean Least Squares Means

-- M --

Mandel Tukey & Mandel Interactions
mandel.plot Tukey/Mandel Interaction Plots of Response for Pairs of Factors
margin.plot Margin Plots of Response for Pairs of Factors
margin.plot.lm Margin Plots of Response for Pairs of Factors in Linear Model
model.response determine names of all factors, covariates, predictors (factors & covariates)or response used in model fit

-- N --

nested nested weighted means for experimental units
nested.tree draw nested tree
norm.ellipse draw circles and ellipses

-- O --

Oocyte Oocyte Development

-- P --

panel.ellipse draw circles and ellipses
PDAexamples PDA examples.
pdalme PDA LME Code Checking
pdiff Table of p-values for Differences of Least Squares Means
pletter Letters for Means that are not Significantly Different
precision round value to precision
pvalue.ellipse Center and Radius for p-value Ellipses

-- R --

Random Random Data Examples
Rantwo Random Two-Factor Data Example
Running Running and Oxygen Consumption

-- S --

sample.size compute sample size by group
se.bar Standard Error and Fisher's LSD Bars for Interaction Plots
splitplot ~function to do ???
std.dev standard deviation of object

-- T --

Tomato Tomato data to find genes for growth
trans.plot Diagnostic plot to find power transform to remove interaction. See Emerson chapter in Hoaglin, Mosteller and Tukey (1991, ch. 13E) Fundamentals of Exploratory Analysis of Variance (Wiley);or see Mosteller and Tukey (1977, ch. 9E,F) Exploratory Data Analysis (Addison-Wesley).
Tree Tree Weed Suppression over Time
TreeAve Tree Weed Suppression over Time
Tukey Tukey & Mandel Interactions
tukey.plot Tukey/Mandel Interaction Plots of Response for Pairs of Factors

-- U --

uncollide spread out values to avoid collision in plotting
unfactor unclass factor (but keep numeric level)

-- W --

Wasp Wasp Shape of Queens and Workers
WheatPDA Wheat virus in plant sap