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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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