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Statistical Analysis and Data Display: Heiberger and Holland

Support software for Statistical Analysis and Data Display (Second Edition, Springer, ISBN 978-1-4939-2121-8, 2015) and (First Edition, Springer, ISBN 0-387-40270-5, 2004) 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 panel.axis.right Right-justify right-axis tick labels. NTplot Specify plots to illustrate Normal and t Hypothesis Tests or Confidence Intervals, including normal approximation to the binomial. HH.regsubsets Display tabular results for Best Subsets Regression. aovSufficient Analysis of variance from sufficient statistics for groups. GSremove Remove selected GraphSheetPages in the S-Plus Windows GUI Graphsheet extra Miscellaneous functions that I wish were in or consistent between S-Plus and R. X.residuals Residuals from the regression of each column of a data.frame against all the other columns. panel.bwplot.intermediate.hh Panel functions for bwplot. hov Homogeneity of Variance Discrete4 Discrete with four levels color dataset. orthog.complete Construct an orthogonal matrix which is an arbitrary completion of the column space of the input set of columns. ResizeEtc.likertPlot Display multiple independent trellis objects, representing likert plots, on the same coordinated scale. 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. interaction2wt Plot all main effects and twoway interactions in a multifactor design grid.yaxis.hh make x- and y-axis labels if.R Conditional Execution for R or S-Plus diagplot5new Transpose of ECDF for centered fitted values and residuals from a linear model. interaction.positioned interaction method for positioned factors. ancova Compute and plot oneway analysis of covariance strip.xysplom strip function that is able to place the correlation or regression coefficient into the strip label. mmcAspect Control aspect ratio in MMC plots to maintain isomeans grid as a square. arma.loop Loop through a series of ARIMA models and display coordinated tables and diagnoastic graphs. panel.bwplot.superpose Panel function for bwplot that displays an entire box in the colors coded by groups. NormalAndTPower Construct a power graph based on the NTplot. axis.i2wt specialized axis function for interaction2wt. hh Resolve filenames relative to the HH directory. panel.bwplott Extension to S-Plus trellis to allow transposed plots. NormalAndTplot Specify plots to illustrate Normal and t Hypothesis Tests or Confidence Intervals. glhtWithMCP.993 Retain averaging behavior that was previously available in glht. ancovaplot Analysis of Covariance Plots ladder Draw a "ladder of powers" plot, plotting each of several powers of y against the same powers of x. col.hh Initializing Trellis Displays HHscriptnames Find absolute pathname of a script file for the HH book in the HH package. do.formula.trellis.xysplom Interprets model formulas for xysplom and extended bwplots export.eps Exports a graph to an EPS file. AEdotplot.data.frame AE (Adverse Events) dotplot of incidence and relative risk, support functions positioned-class Class "positioned", extends "ordered" to specify the position for graphing the levels of a factor. ae.dotplot AE (Adverse Events) dotplot of incidence and relative risk likertColor Selection of colors for Likert plots. panel.acf Panel functions for tsdiagplot. panel.dotplot.tb Dotplot with evenly spaced tiebreakers. mmcPruneIsomeans MMC plots in lattice---suppress isomeans grid lines for specified levels of the factor. vif Calculate the Variance Inflation Factor partial.corr partial correlations seqplot.forecast seqplot with confidence bands for the forecast region. col3x2 col3x2 color dataset datasets Datasets for Statistical Analysis and Data Display, Heiberger and Holland 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. bivariateNormal Plot the bivariate normal density using wireframe for specified rho. lmatPairwise lmatPairwise seqplot Time series plot. likert Diverging stacked barcharts for Likert, semantic differential, rating scale data, and population pyramids. pdiscunif Discrete Uniform Distribution mmcisomeans Functions used by mmcplot. npar.arma Count the number of parameters in an ARIMA model specification. logit Logistic and odds functions and their inverses. anovaMean ANOVA table from the group sample sizes, means, and standard deviations. panel.confintMMC Confidence interval panel for MMC tiebreaker plots, or confidence interval plot. cplx Generate a sequence spanning the xlim of a lattice window. norm.curve plot a normal or a t-curve with both x and z axes. plot.mmc.multicomp MMC (Mean--mean Multiple Comparisons) plot. print.tsdiagplot Print a "tsdiagplot" object. LikertPercentCountColumns Display likert plots with percents in the first column of panels and counts in the second column of panels. residVSfitted Draw plots of resid ~ y.hat and sqrt(abs(resid)) ~ y.hat hovBF Homogeneity of Variance: Brown--Forsyth method objip loop through all attached directories looking for pattern, possibly restricting to specified class or mode. HH-package Support software for Statistical Analysis and Data Display by Richard M. Heiberger and Burt Holland panel.cartesian trellis panel function, with labeled rows and columns and without strip labels. print.NormalAndTplot Print method for Normal and t plots from NTplot. panel.xysplom panel method for xysplom. mmc MMC (Mean--mean Multiple Comparisons) plots. arima.diag.hh Repair design error in S-Plus arima.diag ResizeEtc Display multiple independent trellis objects on the same coordinated scale. tsdiagplot Times series diagnostic plots for a structured set of ARIMA models. AEdotplot AE (Adverse Events) dotplot of incidence and relative risk hhpdf R tools for writing HH2: hhpdf, hhdev.off, hhcapture, hhcode, hhpng, hhlatex as.matrix.listOfNamedMatrices Convert a list of matrices to a single matrix ancova-class Class "ancova" Analysis of Covariance emptyMainLeftAxisLeftStripBottomLegend Remove main title, left axis tick labels, left strip, bottom legend from plot and keep the vertical spacing allocated to those items. diagQQ QQ plot of regression residuals. diag.maybe.null Returns a value for the diagonal of NA and NULL arguments. panel.ci.plot Default Panel Function for ci.plot regrresidplot Draw a plot of y vs x from a linear model object, with residuals indicated by lines or squares. panel.isomeans isomeans grid for MMC plots. OddsRatio Calculate or plot the odds ratio for a 2x2 table of counts. resid.squares plot squared residuals in inches to match the y-dimension latticeresids Subroutine used by residual.plots.lattice print.latticeresids Print a latticeresids object. legendGrob2wt place separate keys to the left of each row of a trellis useOuterStripsT2L1 Three-factor generalization of latticeExtra::useOuterStrips plot.hov Homogeneity of Variance Plot 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. print.TwoTrellisColumns Print two conformable trellis plots in adjacent columns with user control of widths. ci.plot Plot confidence and prediction intervals for simple linear regression push.vp.hh push and pop a grid viewport, turn clipping off, change scale. gof.calculation Calculate Box--Ljung Goodness of Fit for ARIMA models in S-Plus. perspPlane Helper functions for regr2.plot xysplom scatterplot matrix with potentially different sets of variables on the rows and columns. defunct Defunct Functions in Package 'HH' lm.regsubsets Evaluate lm model with highest adjusted $R^2$. residual.plots Residual plots for a linear model. F.curve plot a chisquare or a F-curve. panel.interaction2wt Plot all main effects and twoway interactions in a multifactor design anova.ancovaplot ANOVA table for a c("ancovaplot","trellis") object. mmcplot MMC (Mean-mean Multiple Comparisons) plots in lattice. strip.background0 Turn off the coloring in the trellis strip labels. Color 0 is the background color. regr2.plot 3D plot of z against x and y, with regression plane fit and display of squared residuals. intxplot Interaction plot, with an option to print standard error bars. as.likert Support functions for diverging stacked barcharts for Likert, semantic differential, and rating scale data. tsacfplots Coordinated time series and ACF and PCF plots. as.multicomp Support functions in R for MMC (mean--mean multiple comparisons) plots. multicomp.order Update a multicomp object by ordering its contrasts. likertMosaic Diverging stacked barcharts for Likert, semantic differential, rating scale data, and population pyramids based on mosaic as the plotting style. as.vector.trellis Convert a two-dimensional trellis object into a one-dimensional trellis object. Change the order of panels in a trellis object. panel.pairs.hh Function based on S-Plus panel.pairs to add the subpanel.scales and panel.cex arguments. pyramidLikert Print a Likert plot as a Population Triangle matrix.trellis Convert a one-dimensional trellis object to a two-dimensional trellis object. This permits combineLimits and useOuterStrips to work. mcalinfct MCA multiple comparisons analysis (pairwise) panel.likert Panel functions for likert that include a stackWidth argument regr1.plot plot x and y, with optional straight line fit and display of squared residuals mmc.mean MMC (Mean--mean Multiple Comparisons) plots from the sufficient statistics for a one-way design. lmatRows Find the row numbers in the lmat corresponding to the focus factor. multicomp.reverse Force all comparisons in a "multicomp" object to have the same sign. lm.case case statistics for regression analysis cp.calc Rearranges and improves the legibility of the output from the stepwise function in S-Plus. lmplot Four types of residual plots for linear models. dchisq.intermediate Intermediate f and chisq functions to simplify writing for both R and S-Plus. combineLimits.trellisvector Combine limits on a one-dimensional trellis object. summary.arma.loop summary and print and subscript methods for tsdiagplot and related objects. normalApproxBinomial Plots to illustrate Normal Approximation to the Binomial---hypothesis tests or confidence intervals. 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. plot.multicomp Multiple comparisons plot that gives independent user control over the appearance of the significant and not significant comparisons. interval Prediction and Confidence Intervals for glm Objects rbind.trellis Extend matrix reshaping functions to trellis objects. 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