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s compute pretty axis tick scales boxplot stats box plot statistics bringtotop assign focus to a window cairo cairographics based svg pdf and postscript graphics devices cairosymbolfont specify a symbol font check options set options with consistency checks chull compute convex hull of a set of points cm unit transformation col2rgb color to rgb conversion colorramp color interpolation colors color names contourlines calculate contour lines convertcolor convert between colour spaces denscols colors for smooth density plots dev control multiple devices dev2 copy graphics between multiple devices dev2bitmap graphics device for bitmap files via ghostscript devasknewpage prompt before new page dev capabilities query capabilities of the current graphics device dev capture capture device output as a raster image dev flush hold or flush output on an on screen graphics device devices list of graphical devices dev interactive is the current graphics device interactive dev size find size of device surface embedfonts embed fonts in postscript and pdf extendrange extend a numerical range by a small percentage getgraphicsevent wait for a mouse or keyboard event from a graphics window gray gray level specification gray colors gray color palette grdevices package the r graphics devices and support for colours and fonts grsoftversion report versions of graphics software hcl hcl color specification hershey hershey vector fonts in r hsv hsv color specification japanese japanese characters in r make rgb create colour spaces msgwindow manipulate a window n2mfrow compute default mfrow from number of plots nclass compute the number of classes for a histogram palette set or view the graphics palette palettes color palettes pdf pdf graphics device pdf options auxiliary function to set view defaults for arguments of pdf pictex a pictex graphics driver plotmath mathematical annotation in r postscript postscript graphics postscriptfonts postscript and pdf font families pretty date pretty breakpoints for date time classes ps options auxiliary function to set view defaults for arguments of quartz macos quartz device quartzfonts quartz fonts setup recordgraphics record graphics operations recordplot record and replay plots rgb rgb color specification rgb2hsv rgb to hsv conversion trans3d 3d to 2d transformation for perspective plots type1font type 1 and cid fonts unix png bmp jpeg png and tiff graphics devices unix saveplot save cairo x11 plot to file windows windows graphics devices windowsfonts windows fonts windows options auxiliary function to set view defaults for arguments of windows png bmp jpeg png and tiff graphics devices windows saveplot save windows plot to a file x11 x window system graphics x11 x11fonts x11 fonts xfig xfig graphics device xy coords extracting plotting structures xytable multiplicities of x y points e g for a sunflower plot xyz coords extracting plotting structures grid absolute size absolute size of a grob arrow describe arrows to add to a line calcstringmetric calculate metric information for text current viewport get the current grid viewport tree dataviewport create a viewport with scales based on data depth determine the number of levels in an object deviceloc convert viewport location to device location drawdetails customising grid drawing editdetails customising grid editing editviewport modify a viewport explode explode a path into its components gedit create and apply edit objects getnames list the names of grobs on the display list gpar handling grid graphical parameters gpath concatenate grob names grid grid graphics grid add add a grid graphical object grid bezier draw a bezier curve grid cap capture a raster image grid circle draw a circle grid clip set the clipping region grid convert convert between different grid coordinate systems grid copy make a copy of a grid graphical object grid curve draw a curve between locations grid defunct defunct functions in package grid grid delay encapsulate calculations and generating a grob grid display list control the grid display list grid dlapply modify the grid display list grid draw draw a grid grob grid edit edit the description of a grid graphical object grid force force a grob into its components grid frame create a frame for packing objects grid function draw a curve representing a function grid get get a grid graphical object grid grab grab the current grid output grid grep search for grobs grid grill draw a grill grid grob create grid graphical objects aka grob s grid internal internal grid functions grid layout create a grid layout grid lines draw lines in a grid viewport grid locator capture a mouse click grid ls list the names of grobs or viewports grid move to move or draw to a specified position grid newpage move to a new page on a grid device grid null null graphical object grid pack pack an object within a frame grid package the grid graphics package grid path draw a path grid place place an object within a frame grid plot and legend a simple plot and legend demo grid points draw data symbols grid polygon draw a polygon grid pretty generate a sensible set of breakpoints grid raster render a raster object grid record encapsulate calculations and drawing grid rect draw rectangles grid refresh refresh the current grid scene grid remove remove a grid graphical object grid reorder reorder the children of a gtree grid roundrect draw a rectangle with rounded corners grid segments draw line segments grid set set a grid graphical object grid show layout draw a diagram of a grid layout grid show viewport draw a diagram of a grid viewport grid text draw text grid xaxis draw an x axis grid xspline draw an xspline grid yaxis draw a y axis grobcoords calculate points on the perimeter of a grob grobname generate a name for a grob grobwidth create a unit describing the width of a grob grobx create a unit describing a grob boundary location legendgrob constructing a legend grob makecontent customised grid grobs patterns define gradient and pattern fills plotviewport create a viewport with a standard plot layout resolverastersize utility function to resolve the size of a raster grob showgrob label grid grobs showviewport display grid viewports stringwidth create a unit describing the width and height of a string or unit function to create a unit object unit c combine unit objects unit length length of a unit object unit pmin parallel unit minima and maxima unit rep replicate elements of unit objects unittype return the units of a unit object validdetails customising grid grob validation valid just validate a justification viewport create a grid viewport viewports maintaining and navigating the grid viewport tree vppath concatenate viewport names widthdetails width and height of a grid grob xdetails boundary of a grid grob xsplinepoints return the points that would be used to draw an xspline or a methods as force an object to belong to a class basicclasses classes corresponding to basic data types callgeneric call the current generic function from a method cancoerce can an object be coerced to a certain s4 class cbind2 combine two objects by columns or rows classes s4 class documentation classes_details class definitions classestoam compute an adjacency matrix for superclasses of class classname class names including the corresponding package classrepresentation class class objects documentation using and creating on line documentation for classes and dotsmethods the use of in method signatures emptymethodslist class internal class representing empty methods list environmentclass class environment evalsource use function definitions from a source file without findclass find class definitions findmethods description of the methods defined for a generic function fixprevious fix objects saved from r versions previous to 1 8 genericfunction class generic function objects genericfunctions tools for managing generic functions getclass get class definition getmethod get or test for the definition of a method getpackagename the name associated with a given package hasarg look for an argument in the call implicitgeneric manage implicit versions of generic functions inheritedslotnames names of slots inherited from a super class initialize methods methods to initialize new objects from a class introduction basic use of s4 methods and classes is is an object from a class issealedmethod check for a sealed method or class languageclasses classes to represent unevaluated language objects languageel elements of language objects linearmethodslist class class linearmethodslist localrefclass localized objects based on reference classes methoddefinition class classes to represent method definitions methods s4 class documentation methods defunct defunct functions in package methods methods deprecated deprecated functions in package methods methods_details general information on methods methods_for_nongenerics methods for non generic functions in other packages methods_for_s3 methods for s3 and s4 dispatch method skeleton create a skeleton file for a new method methodslist methodslist objects methodslist class class methodslist defunct representation of methods methods package formal methods and classes methodsupport additional support functions for methods methodutilities utility functions for methods and s plus compatibility methodwithnext 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 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