# HH v3.1-15

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## Statistical Analysis and Data Display: Heiberger and Holland

Support software for Statistical Analysis and Data Display (First Edition, Springer, ISBN 0-387-40270-5, 2004) and (Second Edition, Springer, ISBN 978-1-4939-2121-8, anticipated 2015) by Richard M. Heiberger and Burt Holland. This contemporary presentation of statistical methods features extensive use of graphical displays for exploring data and for displaying the analysis. The second edition includes redesigned graphics and additional chapters. The authors emphasize how to construct and interpret graphs, discuss principles of graphical design, and show how accompanying traditional tabular results are used to confirm the visual impressions derived directly from the graphs. Many of the graphical formats are novel and appear here for the first time in print. All chapters have exercises. All functions introduced in the book are in the package. R code for all examples, both graphs and tables, in the book is included in the scripts directory of the package.

## Functions in HH

Name | Description | |

aovSufficient | Analysis of variance from sufficient statistics for groups. | |

defunct | Defunct Functions in Package 'HH' | |

as.matrix.listOfNamedMatrices | Convert a list of matrices to a single matrix | |

HH.regsubsets | Display tabular results for Best Subsets Regression. | |

lmatRows | Find the row numbers in the lmat corresponding to the focus factor. | |

as.vector.trellis | Convert a two-dimensional trellis object into a one-dimensional trellis object. Change the order of panels in a trellis object. | |

ResizeEtc.likertPlot | Display multiple independent trellis objects, representing likert plots, on the same coordinated scale. | |

residVSfitted | Draw plots of resid ~ y.hat and sqrt(abs(resid)) ~ y.hat | |

mmc | MMC (Mean--mean Multiple Comparisons) plots. | |

AEdotplot.data.frame | AE (Adverse Events) dotplot of incidence and relative risk, support functions | |

hov | Homogeneity of Variance | |

ResizeEtc | Display multiple independent trellis objects on the same coordinated scale. | |

X.residuals | Residuals from the regression of each column of a data.frame against all the other columns. | |

anovaMean | ANOVA table from the group sample sizes, means, and standard deviations. | |

glhtWithMCP.993 | Retain averaging behavior that was previously available in glht. | |

diagplot5new | Transpose of ECDF for centered fitted values and residuals from a linear model. | |

ancova | Compute and plot oneway analysis of covariance | |

cplx | Generate a sequence spanning the xlim of a lattice window. | |

summary.arma.loop | summary and print and subscript methods for tsdiagplot and related objects. | |

print.NormalAndTplot | Print method for Normal and t plots from NTplot. | |

pyramidLikert | Print a Likert plot as a Population Triangle | |

lmplot | Four types of residual plots for linear models. | |

likertMosaic | Diverging stacked barcharts for Likert, semantic differential, rating scale data, and population pyramids based on mosaic as the plotting style. | |

diag.maybe.null | Returns a value for the diagonal of NA and NULL arguments. | |

NormalAndTplot | Specify plots to illustrate Normal and t Hypothesis Tests or Confidence Intervals. | |

seqplot.forecast | seqplot with confidence bands for the forecast region. | |

panel.isomeans | isomeans grid for MMC plots. | |

cp.calc | Rearranges and improves the legibility of the output from the stepwise function in S-Plus. | |

combineLimits.trellisvector | Combine limits on a one-dimensional trellis object. | |

GSremove | Remove selected GraphSheetPages in the S-Plus Windows GUI Graphsheet | |

ci.plot | Plot confidence and prediction intervals for simple linear regression | |

ancova-class | Class "ancova" Analysis of Covariance | |

interaction2wt | Plot all main effects and twoway interactions in a multifactor design | |

NTplot | Specify plots to illustrate Normal and t Hypothesis Tests or Confidence Intervals, including normal approximation to the binomial. | |

diagQQ | QQ plot of regression residuals. | |

HH-package | Support software for Statistical Analysis and Data Display by Richard M. Heiberger and Burt Holland | |

arma.loop | Loop through a series of ARIMA models and display coordinated tables and diagnoastic graphs. | |

dchisq.intermediate | Intermediate f and chisq functions to simplify writing for both R and S-Plus. | |

gof.calculation | Calculate Box--Ljung Goodness of Fit for ARIMA models in S-Plus. | |

normalApproxBinomial | Plots to illustrate Normal Approximation to the Binomial---hypothesis tests or confidence intervals. | |

likert | Diverging stacked barcharts for Likert, semantic differential, rating scale data, and population pyramids. | |

panel.likert | Panel functions for likert that include a stackWidth argument | |

HHscriptnames | Find absolute pathname of a script file for the HH book in the HH package. | |

panel.cartesian | trellis panel function, with labeled rows and columns and without strip labels. | |

mmc.mean | MMC (Mean--mean Multiple Comparisons) plots from the sufficient statistics for a one-way design. | |

col.hh | Initializing Trellis Displays | |

ladder | Draw a "ladder of powers" plot, plotting each of several powers of y against the same powers of x. | |

lm.case | case statistics for regression analysis | |

panel.axis.right | Right-justify right-axis tick labels. | |

likertColor | Selection of colors for Likert plots. | |

as.multicomp | Support functions in R for MMC (mean--mean multiple comparisons) plots. | |

bivariateNormal | Plot the bivariate normal density using wireframe for specified rho. | |

extra | Miscellaneous functions that I wish were in or consistent between S-Plus and R. | |

panel.bwplot.intermediate.hh | Panel functions for bwplot. | |

interaction.positioned | interaction method for positioned factors. | |

regr1.plot | plot x and y, with optional straight line fit and display of squared residuals | |

print.tsdiagplot | Print a "tsdiagplot" object. | |

npar.arma | Count the number of parameters in an ARIMA model specification. | |

hhpdf | R tools for writing HH2: hhpdf, hhdev.off, hhcapture, hhcode | |

axis.i2wt | specialized axis function for interaction2wt. | |

panel.interaction2wt | Plot all main effects and twoway interactions in a multifactor design | |

logit | Logistic and odds functions and their inverses. | |

useOuterStripsT2L1 | Three-factor generalization of latticeExtra::useOuterStrips | |

anova.ancovaplot | ANOVA table for a c("ancovaplot","trellis") object. | |

matrix.trellis | Convert a one-dimensional trellis object to a two-dimensional trellis object. This permits combineLimits and useOuterStrips to work. | |

grid.yaxis.hh | make x- and y-axis labels | |

position | Find or assign the implied position for graphing the levels of a factor. A new class "positioned", which inherits from "ordered" and "factor", is defined. | |

if.R | Conditional Execution for R or S-Plus | |

mmcAspect | Control aspect ratio in MMC plots to maintain isomeans grid as a square. | |

multicomp.order | Update a multicomp object by ordering its contrasts. | |

plot.hov | Homogeneity of Variance Plot | |

panel.pairs.hh | Function based on S-Plus panel.pairs to add the subpanel.scales and panel.cex arguments. | |

interval | Prediction and Confidence Intervals for glm Objects | |

ancovaplot | Analysis of Covariance Plots | |

AEdotplot | AE (Adverse Events) dotplot of incidence and relative risk | |

OddsRatio | Calculate or plot the odds ratio for a 2x2 table of counts. | |

tsdiagplot | Times series diagnostic plots for a structured set of ARIMA models. | |

datasets | Datasets for Statistical Analysis and Data Display, Heiberger and Holland | |

mmcplot | MMC (Mean-mean Multiple Comparisons) plots in lattice. | |

regr2.plot | 3D plot of z against x and y, with regression plane fit and display of squared residuals. | |

lm.regsubsets | Evaluate lm model with highest adjusted $R^2$. | |

residual.plots | Residual plots for a linear model. | |

xysplom | scatterplot matrix with potentially different sets of variables on the rows and columns. | |

arima.diag.hh | Repair design error in S-Plus arima.diag | |

panel.dotplot.tb | Dotplot with evenly spaced tiebreakers. | |

export.eps | Exports a graph to an EPS file. | |

ae.dotplot | AE (Adverse Events) dotplot of incidence and relative risk | |

do.formula.trellis.xysplom | Interprets model formulas for xysplom and extended bwplots | |

norm.curve | plot a normal or a t-curve with both x and z axes. | |

legendGrob2wt | place separate keys to the left of each row of a trellis | |

mcalinfct | MCA multiple comparisons analysis (pairwise) | |

LikertPercentCountColumns | Display likert plots with percents in the first column of panels and counts in the second column of panels. | |

OneWayVarPlot | Displays a three-panel bwplot of the data by group, of the group means, and of the entire dataset. This is an approximate visualization of the Mean Square lines from the ANOVA table for a one-way ANOVA model. | |

push.vp.hh | push and pop a grid viewport, turn clipping off, change scale. | |

hovBF | Homogeneity of Variance: Brown--Forsyth method | |

multicomp.reverse | Force all comparisons in a "multicomp" object to have the same sign. | |

plot.multicomp | Multiple comparisons plot that gives independent user control over the appearance of the significant and not significant comparisons. | |

panel.confintMMC | Confidence interval panel for MMC tiebreaker plots, or confidence interval plot. | |

F.curve | plot a chisquare or a F-curve. | |

print.latticeresids | Print a latticeresids object. | |

latticeresids | Subroutine used by residual.plots.lattice | |

strip.background0 | Turn off the coloring in the trellis strip labels. Color 0 is the background color. | |

sufficient | Calculates the mean, standard deviation, and number of observations in each group of a data.frame that has one continuous variable and two factors. | |

print.TwoTrellisColumns | Print two conformable trellis plots in adjacent columns with user control of widths. | |

panel.bwplot.superpose | Panel function for bwplot that displays an entire box in the colors coded by groups. | |

perspPlane | Helper functions for regr2.plot | |

panel.acf | Panel functions for tsdiagplot. | |

regrresidplot | Draw a plot of y vs x from a linear model object, with residuals indicated by lines or squares. | |

as.likert | Support functions for diverging stacked barcharts for Likert, semantic differential, and rating scale data. | |

residual.plots.lattice | Construct four sets of regression plots: Y against X, residuals against X, partial residuals against X, partial residuals against each X adjusted for all the other X columns. | |

pdiscunif | Discrete Uniform Distribution | |

resid.squares | plot squared residuals in inches to match the y-dimension | |

partial.corr | partial correlations | |

NormalAndTPower | Construct a power graph based on the NTplot. | |

strip.xysplom | strip function that is able to place the correlation or regression coefficient into the strip label. | |

seqplot | Time series plot. | |

plot.mmc.multicomp | MMC (Mean--mean Multiple Comparisons) plot. | |

orthog.complete | Construct an orthogonal matrix which is an arbitrary completion of the column space of the input set of columns. | |

vif | Calculate the Variance Inflation Factor | |

emptyMainLeftAxisLeftStripBottomLegend | Remove main title, left axis tick labels, left strip, bottom legend from plot and keep the vertical spacing allocated to those items. | |

intxplot | Interaction plot, with an option to print standard error bars. | |

tsacfplots | Coordinated time series and ACF and PCF plots. | |

panel.bwplott | Extension to S-Plus trellis to allow transposed plots. | |

hh | Resolve filenames relative to the HH directory. | |

panel.ci.plot | Default Panel Function for ci.plot | |

panel.xysplom | panel method for xysplom. | |

positioned-class | Class "positioned", extends "ordered" to specify the position for graphing the levels of a factor. | |

objip | loop through all attached directories looking for pattern | |

mmcisomeans | Functions used by mmcplot. | |

rbind.trellis | Extend matrix reshaping functions to trellis objects. | |

mmcPruneIsomeans | MMC plots in lattice---suppress isomeans grid lines for specified levels of the factor. | |

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## Details

Type | Package |

Date | 2015-01-10 |

License | GPL (>= 2) |

NeedsCompilation | no |

Packaged | 2015-02-15 18:12:48 UTC; rmh |

Repository | CRAN |

Date/Publication | 2015-02-16 07:02:34 |

suggests | abind , car , methods , mvtnorm , RcmdrPlugin , RcmdrPlugin.HH |

depends | base (>= 3.0.2) , grid , gridExtra , lattice , latticeExtra , multcomp , R (>= 3.0.2) , stats |

imports | colorspace , leaps , Rcmdr , RColorBrewer , reshape2 , shiny , vcd |

Contributors | Richard Heiberger |

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