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t class class methodwithnext new generate an object from a class nextmethod call an inherited method nonstructure class a non structure s4 class for basic types objectswithpackage class a vector of object names with associated package names promptclass generate a shell for documentation of a formal class promptmethods generate a shell for documentation of formal methods rclassutils utilities for managing class definitions refclass objects with fields treated by reference oop style removemethod remove a method representation construct a representation or a prototype for a class rmethodutils method utilities s3part s4 classes that contain s3 classes s4groupgeneric s4 group generic functions sclassextension class class to represent inheritance extension relations selectsuperclasses super classes of specific kinds of a class setas methods for coercing an object to a class setclass create a class definition setclassunion classes defined as the union of other classes setgeneric create a generic version of a function setgroupgeneric create a group generic version of a function setis specify a superclass explicitly setloadactions set actions for package loading setmethod create and save a method setoldclass register old style s3 classes and inheritance setsclass create a class definition show show an object showmethods show all the methods for the specified function s or class signature class class signature for method definitions slot the slots in an object from a formal class stdrefclass class envrefclass structureclasses classes corresponding to basic structures substitutedirect substitutedirect testinheritedmethods test for and report about selection of inherited methods traceclasses classes used internally to control tracing validobject test the validity of an object zbasicfunslist list of builtin and special functions parallel clusterapply apply operations using clusters detectcores detect the number of cpu cores makecluster create a parallel socket cluster parallel package support for parallel computation rngstream implementation of pierre l ecuyer s rngstreams splitindices divide tasks for distribution in a cluster unix children low level functions for management of forked processes unix mcaffinity get or set cpu affinity mask of the current process unix mcfork fork a copy of the current r process unix mclapply parallel versions of lapply and mapply using forking unix mcparallel evaluate an r expression asynchronously in a separate process unix pvec parallelize a vector map function using forking windows mcdummies serial versions of mclapply mcmapply and pvec splines asvector coerce an object to a vector backspline monotone inverse spline bs b spline basis for polynomial splines interpspline create an interpolation spline ns generate a basis matrix for natural cubic splines periodicspline create a periodic interpolation spline polyspline piecewise polynomial spline representation predict bs evaluate a spline basis predict bspline evaluate a spline at new values of x splinedesign design matrix for b splines splineknots knot vector from a spline splineorder determine the order of a spline splines package regression spline functions and classes xyvector construct an xyvector object stats acf auto and cross covariance and correlation function acf2ar compute an ar process exactly fitting an acf add1 add or drop all possible single terms to a model addmargins puts arbitrary margins on multidimensional tables or arrays aggregate compute summary statistics of data subsets aic akaike s an information criterion alias find aliases dependencies in a model anova anova tables anova glm analysis of deviance for generalized linear model fits anova lm anova for linear model fits anova mlm comparisons between multivariate linear models ansari test ansari bradley test aov fit an analysis of variance model approxfun interpolation functions ar fit autoregressive models to time series arima arima modelling of time series arima0 arima modelling of time series preliminary version arima sim simulate from an arima model armaacf compute theoretical acf for an arma process armatoma convert arma process to infinite ma process ar ols fit autoregressive models to time series by ols as hclust convert objects to class hclust asonesidedformula convert to one sided formula ave group averages over level combinations of factors bandwidth bandwidth selectors for kernel density estimation bartlett test bartlett test of homogeneity of variances beta the beta distribution binomial the binomial distribution binom test exact binomial test biplot biplot of multivariate data biplot princomp biplot for principal components birthday probability of coincidences box test box pierce and ljung box tests cancor canonical correlations case names case and variable names of fitted models cauchy the cauchy distribution checkmfclasses functions to check the type of variables passed to model chisq test pearson s chi squared test for count data chisquare the non central chi squared distribution cmdscale classical metric multidimensional scaling coef extract model coefficients complete cases find complete cases confint confidence intervals for model parameters constroptim linearly constrained optimization contrast possibly sparse contrast matrices contrasts get and set contrast matrices convolve convolution of sequences via fft cophenetic cophenetic distances for a hierarchical clustering cor correlation variance and covariance matrices cor test test for association correlation between paired samples cov wt weighted covariance matrices cpgram plot cumulative periodogram cutree cut a tree into groups of data decompose classical seasonal decomposition by moving averages delete response modify terms objects dendrapply apply a function to all nodes of a dendrogram dendrogram general tree structures density kernel density estimation deriv symbolic and algorithmic derivatives of simple expressions deviance model deviance df residual residual degrees of freedom diffinv discrete integration inverse of differencing dist distance matrix computation distributions distributions in the stats package dummy coef extract coefficients in original coding ecdf empirical cumulative distribution function eff aovlist compute efficiencies of multistratum analysis of variance effects effects from fitted model embed embedding a time series expand model frame add new variables to a model frame exponential the exponential distribution extractaic extract aic from a fitted model factanal factor analysis factor scope compute allowed changes in adding to or dropping from a family family objects for models fdist the f distribution fft fast discrete fourier transform fft filter linear filtering on a time series fisher test fisher s exact test for count data fitted values extract model fitted values fivenum tukey five number summaries fligner test fligner killeen test of homogeneity of variances formula model formulae formula nls extract model formula from nls object friedman test friedman rank sum test ftable flat contingency tables ftable formula formula notation for flat contingency tables gammadist the gamma distribution geometric the geometric distribution getinitial get initial parameter estimates glm fitting generalized linear models glm control auxiliary for controlling glm fitting glm summaries accessing generalized linear model fits hclust hierarchical clustering heatmap draw a heat map holtwinters holt winters filtering hypergeometric the hypergeometric distribution identify hclust identify clusters in a dendrogram influence measures regression deletion diagnostics integrate integration of one dimensional functions interaction plot two way interaction plot iqr the interquartile range is empty test if a model s formula is empty isoreg isotonic monotone regression kalmanlike kalman filtering kernapply apply smoothing kernel kernel smoothing kernel objects kmeans k means clustering kruskal test kruskal wallis rank sum test ksmooth kernel regression smoother ks test kolmogorov smirnov tests lag lag a time series lag plot time series lag plots line robust line fitting listof a class for lists of parts of model fits lm fitting linear models lmfit fitter functions for linear models lm influence regression diagnostics lm summaries accessing linear model fits loadings print loadings in factor analysis loess local polynomial regression fitting loess control set parameters for loess logistic the logistic distribution loglik extract log likelihood loglin fitting log linear models lognormal the log normal distribution lowess scatter plot smoothing ls diag compute diagnostics for lsfit regression results lsfit find the least squares fit ls print print lsfit regression results mad median absolute deviation mahalanobis mahalanobis distance make link create a link for glm families makepredictcall utility function for safe prediction manova multivariate analysis of variance mantelhaen test cochran mantel haenszel chi squared test for count data mauchly test mauchly s test of sphericity mcnemar test mcnemar s chi squared test for count data median median value medpolish median polish robust twoway decomposition of a matrix model extract extract components from a model frame model frame extracting the model frame from a formula or fit model matrix construct design matrices model tables compute tables of results from an aov model fit monthplot plot a seasonal or other subseries from a time series mood test mood two sample test of scale multinom the multinomial distribution na action na action na contiguous find longest contiguous stretch of non nas na fail handle missing values in objects nafns adjust for missing values naprint adjust for missing values negbinomial the negative binomial distribution nextn find highly composite numbers nlm non linear minimization nlminb optimization using port routines nls nonlinear least squares nls control control the iterations in nls nlsstasymptotic fit the asymptotic regression model nlsstclosestx inverse interpolation nlsstlfasymptote horizontal asymptote on the left side nlsstrtasymptote horizontal asymptote on the right side nobs extract the number of observations from a fit normal the normal distribution numericderiv evaluate derivatives numerically offset include an offset in a model formula oneway test test for equal means in a one way layout optim general purpose optimization optimize one dimensional optimization order dendrogram ordering or labels of the leaves in a dendrogram p adjust adjust p values for multiple comparisons pair construct paired data object pairwise prop test pairwise comparisons for proportions pairwise table tabulate p values for pairwise comparisons pairwise t test pairwise t tests pairwise wilcox test pairwise wilcoxon rank sum tests plot acf plot autocovariance and autocorrelation functions plot density plot method for kernel density estimation plot holtwinters plot function for holtwinters objects plot isoreg plot method for isoreg objects plot lm plot diagnostics for an lm object plot ppr plot ridge functions for projection pursuit regression fit plot profile nls plot a profile nls object plot spec plotting spectral densities plot stepfun plot step functions plot ts plotting time series objects poisson the poisson distribution poisson test exact poisson tests poly compute orthogonal polynomials power create a power link object power anova test power calculations for balanced one way analysis of variance power prop test power calculations for two sample test for proportions power t test power calculations for one and two sample t tests ppoints ordinates for probability plotting ppr projection pursuit regression pp test phillips perron test for unit roots prcomp principal components analysis predict model predictions predict arima forecast from arima fits predict glm predict method for glm fits predict holtwinters prediction function for fitted holt winters models predict lm predict method for linear model fits predict loess predict loess curve or surface predict nls predicting from nonlinear least squares fits predict smooth spline predict from smoothing spline fit preplot pre computations for a plotting object princomp principal components analysis printcoefmat print coefficient matrices print power htest print methods for hypothesis tests and power calculation print ts printing and formatting of time series objects profile generic function for profiling models profile nls method for profiling nls objects proj projections of models prop test test of equal or given proportions prop trend test test for trend in proportions qqnorm quantile quantile plots quade test quade test quantile sample quantiles r2dtable random 2 way tables with given marginals read ftable manipulate flat contingency tables rect hclust draw rectangles around hierarchical clusters relevel reorder levels of factor reorder dendrogram reorder a dendrogram reorder factor reorder levels of a factor replications number of replications of terms reshape reshape grouped data residuals extract model residuals runmed running medians robust scatter plot smoothing rwishart random wishart distributed matrices scatter smooth scatter plot with smooth curve fitted by loess screeplot screeplots sd standard deviation se contrast standard errors for contrasts in model terms selfstart construct self starting nonlinear models setnames set the names in an object shapiro test shapiro wilk normality test sigma extract residual standard deviation sigma signrank distribution of the wilcoxon signed rank statistic simulate simulate responses smooth tukey s running median smoothing smoothends end points smoothing for running medians smooth spline fit a smoothing spline sortedxydata create a sortedxydata object spec ar estimate spectral density of a time series from ar fit spec pgram estimate spectral density of a time series by a smoothed spec taper taper a time series by a cosine bell spectrum spectral density estimation splinefun interpolating splines ssasymp self starting nls asymptotic regression model ssasympoff self starting nls asymptotic regression model with an offset ssasymporig self starting nls asymptotic regression model through the ssbiexp self starting nls biexponential model ssd ssd matrix and estimated variance matrix in multivariate ssfol self starting nls first order compartment model ssfpl self starting nls four parameter logistic model ssgompertz self starting nls gompertz growth model sslogis self starting nls logistic model ssmicmen self starting nls michaelis menten model ssweibull self starting nls weibull growth curve model start encode the terminal times of time series stat anova glm anova statistics stats defunct defunct functions in package stats stats deprecated deprecated functions in package stats stats package the r stats package step choose a model by aic in a stepwise algorithm stepfun step functions creation and class stl seasonal decomposition of time series by loess...
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