1# Refer to all C/Fortran routines by their name prefixed by C_ 2useDynLib(stats, .registration = TRUE, .fixes = "C_") 3 4import(graphics) 5importFrom(grDevices, as.graphicsAnnot, dev.cur, dev.flush, dev.hold, 6 dev.interactive, dev.new, dev.set, devAskNewPage, 7 extendrange, n2mfrow, palette, xy.coords) 8importFrom(utils, count.fields, flush.console, str, tail) 9 10export(.checkMFClasses, .getXlevels, .MFclass, .nknots.smspl, 11 acf, acf2AR, add.scope, 12 add1, addmargins, aggregate,aggregate.ts, AIC, alias, anova, 13 aov, approx, approxfun, ar, ar.burg, ar.mle, ar.ols, ar.yw, 14 arima, arima.sim, arima0, arima0.diag, ARMAacf, ARMAtoMA, 15 as.dendrogram, as.dist, as.formula, as.hclust, as.stepfun, 16 as.ts, asOneSidedFormula, ave, bandwidth.kernel, BIC, binomial, 17 biplot, Box.test, bw.bcv, bw.nrd, bw.nrd0, bw.SJ, bw.ucv, C, 18 cancor, case.names, ccf, cmdscale, coef, coefficients, 19 complete.cases, confint, confint.default, confint.lm, constrOptim, 20 contr.SAS, contr.helmert, contr.poly, contr.sum, 21 contr.treatment, contrasts, "contrasts<-", convolve, 22 cooks.distance, cophenetic, cor, cov, cov.wt, cov2cor, 23 covratio, cpgram, cutree, cycle, 24 D, DF2formula, 25 dbeta, dbinom, dcauchy, 26 dchisq, decompose, delete.response, deltat, dendrapply, 27 density, deriv, deriv3, deviance, dexp, df, df.kernel, 28 df.residual, dfbeta, dfbetas, dffits, dgamma, dgeom, dhyper, 29 diffinv, dist, dlnorm, dlogis, dmultinom, dnbinom, dnorm, 30 dpois, drop.scope, drop.terms, drop1, dsignrank, dt, 31 dummy.coef, dummy.coef.lm, dunif, dweibull, dwilcox, ecdf, eff.aovlist, 32 effects, embed, estVar, end, expand.model.frame, extractAIC, 33 factanal, factor.scope, family, fft, filter, fitted, 34 fitted.values, fivenum, formula, frequency, ftable, Gamma, 35 gaussian, get_all_vars, getCall, getInitial, glm, glm.control, 36 glm.fit, hasTsp, hat, hatvalues, hclust, heatmap, HoltWinters, 37 influence, influence.measures, integrate, interaction.plot, 38 inverse.gaussian, IQR, is.empty.model, is.leaf, is.mts, 39 is.stepfun, is.ts, is.tskernel, isoreg, KalmanForecast, 40 KalmanLike, KalmanRun, KalmanSmooth, kernapply, kernel, kmeans, 41 knots, ksmooth, lag, lag.plot, line, lm, lm.fit, .lm.fit, 42 lm.influence, lm.wfit, loadings, loess, loess.control, 43 loess.smooth, logLik, loglin, lowess, ls.diag, ls.print, lsfit, 44 mad, mahalanobis, make.link, makeARIMA, makepredictcall, 45 manova, mauchly.test, median, medpolish, model.extract, 46 model.frame, model.matrix, model.offset, model.response, 47 model.tables, model.weights, monthplot, mvfft, na.action, 48 na.contiguous, na.exclude, na.fail, na.omit, na.pass, 49 napredict, naprint, naresid, nextn, nlm, nlminb, nls, 50 nls.control, NLSstAsymptotic, NLSstClosestX, NLSstLfAsymptote, 51 NLSstRtAsymptote, nobs, numericDeriv, offset, optim, optimHess, 52 optimise, optimize, order.dendrogram, Pair, p.adjust, 53 p.adjust.methods, pacf, pairwise.table, pbeta, pbinom, pcauchy, 54 pchisq, pexp, pf, pgamma, pgeom, phyper, plclust, plnorm, 55 plogis, pnbinom, pnorm, poisson, poly, polym, power, ppoints, 56 ppois, ppr, PP.test, prcomp, predict, preplot, .preformat.ts, princomp, 57 printCoefmat, profile, proj, promax, psignrank, pt, ptukey, 58 punif, pweibull, pwilcox, qbeta, qbinom, qcauchy, qchisq, qexp, 59 qf, qgamma, qgeom, qhyper, qlnorm, qlogis, qnbinom, qnorm, 60 qpois, qqline, qqnorm, qqplot, qsignrank, qt, qtukey, quantile, 61 quasi, quasibinomial, quasipoisson, qunif, qweibull, qwilcox, 62 r2dtable, rbeta, rbinom, rcauchy, rchisq, read.ftable, 63 rect.hclust, reformulate, relevel, reorder, replications, 64 reshape, resid, residuals, rexp, rf, rgamma, rgeom, rhyper, 65 rlnorm, rlogis, rmultinom, rnbinom, rnorm, rpois, rsignrank, 66 rstandard, rstudent, rt, runif, runmed, rweibull, rwilcox, 67 rWishart, scatter.smooth, screeplot, sd, se.contrast, 68 selfStart, setNames, sigma, simulate, smooth, smooth.spline, 69 smoothEnds, sortedXyData, spec.ar, spec.pgram, spec.taper, 70 spectrum, spline, splinefun, splinefunH, SSD, SSasymp, 71 SSasympOff, SSasympOrig, SSbiexp, SSfol, SSfpl, SSgompertz, 72 SSlogis, SSmicmen, SSweibull, start, stat.anova, step, stepfun, 73 stl, StructTS, summary.manova, supsmu, symnum, termplot, terms, 74 time, toeplitz, ts, ts.intersect, ts.plot, ts.union, tsdiag, 75 tsp, "tsp<-", tsSmooth, TukeyHSD, uniroot, update, var, 76 variable.names, varimax, .vcov.aliased, vcov, weighted.mean, 77 weighted.residuals, weights, window, "window<-", write.ftable, 78 xtabs, pbirthday, qbirthday) 79 80## from ctest 81export(ansari.test, bartlett.test, binom.test, chisq.test, cor.test, 82 fisher.test, fligner.test, friedman.test, kruskal.test, 83 ks.test, mantelhaen.test, mauchly.test, mcnemar.test, 84 mood.test, oneway.test, pairwise.prop.test, pairwise.t.test, 85 pairwise.wilcox.test, poisson.test, power.anova.test, 86 power.prop.test, power.t.test, prop.test, prop.trend.test, 87 quade.test, shapiro.test, t.test, var.test, wilcox.test) 88 89export(plot.spec.coherency, plot.spec.phase) 90 91 92## methods used by R itself. 93export(density.default, model.frame.default, plot.ecdf, plot.stepfun, 94 summary.aov, summary.lm, summary.stepfun, update.formula) 95 96## historical 97export(aggregate.data.frame, median.default, model.matrix.default, 98 model.matrix.lm, plot.ts, predict.glm, predict.lm, 99 residuals.glm, residuals.lm, summary.glm, terms.formula, 100 update.default) 101 102## model.matrix.lm: robustbase 103## residuals.glm: DAMisc, car, haplo.stats, lasso2, plsRbeta, plsRglm, rms, spgwr 104## residuals.lm: CADFest, robustbase 105## update.default: MuMIn, spatstat 106 107 108## register all the methods for generics elsewhere in case namespace is 109## loaded but not currently attached. 110S3method("[", acf) 111S3method("[", formula) 112S3method("[", terms) 113S3method("[", ts) 114S3method("[", tskernel) 115S3method("[<-", ts) 116S3method("[[", dendrogram) 117S3method(add1, default) 118S3method(add1, glm) 119S3method(add1, lm) 120S3method(add1, mlm) 121S3method(aggregate, data.frame) 122S3method(aggregate, default) 123S3method(aggregate, "formula") 124S3method(aggregate, ts) 125S3method(AIC, default) 126S3method(AIC, logLik) 127S3method(alias, formula) 128S3method(alias, lm) 129S3method(ansari.test, default) 130S3method(ansari.test, formula) 131S3method(ar.burg, default) 132S3method(ar.burg, mts) 133S3method(ar.yw, default) 134S3method(ar.yw, mts) 135S3method(as.data.frame, aovproj) 136S3method(as.data.frame, ftable) 137S3method(as.data.frame, logLik) 138S3method(as.dendrogram, dendrogram) 139S3method(as.dendrogram, hclust) 140S3method(as.dist, default) 141S3method(as.hclust, dendrogram) 142S3method(as.hclust, default) 143S3method(as.hclust, twins) 144S3method(as.matrix, dist) 145S3method(as.matrix, ftable) 146S3method(as.stepfun, default) 147S3method(as.stepfun, isoreg) 148S3method(as.table, ftable) 149S3method(as.ts, default) 150S3method(anova, glm) 151S3method(anova, glmlist) 152S3method(anova, lm) 153S3method(anova, lmlist) 154S3method(anova, loess) 155S3method(anova, mlm) 156S3method(anova, nls) 157S3method(bartlett.test, default) 158S3method(bartlett.test, formula) 159S3method(BIC, default) 160S3method(BIC, logLik) 161S3method(biplot, default) 162S3method(biplot, princomp) 163S3method(biplot, prcomp) 164S3method(case.names, default) 165S3method(case.names, lm) 166S3method(cbind, ts) 167S3method(coef, aov) 168S3method(coef, Arima) 169S3method(coef, default) 170S3method(coef, listof) 171S3method(coef, maov) 172S3method(coef, nls) 173S3method(confint, default) 174S3method(confint, glm) 175S3method(confint, lm) 176S3method(confint, nls) 177S3method(cooks.distance, glm) 178S3method(cooks.distance, lm) 179S3method(cophenetic, default) 180S3method(cophenetic, dendrogram) 181S3method(cor.test, default) 182S3method(cor.test, formula) 183S3method(cut, dendrogram) 184S3method(cycle, default) 185S3method(cycle, ts) 186S3method(deltat, default) 187S3method(density, default) 188S3method(deriv, default) 189S3method(deriv, formula) 190S3method(deriv3, default) 191S3method(deriv3, formula) 192S3method(deviance, default) 193S3method(deviance, glm) 194S3method(deviance, lm) 195S3method(deviance, mlm) 196S3method(deviance, nls) 197S3method(diffinv, default) 198S3method(diffinv, ts) 199S3method(diffinv, vector) 200S3method(df.residual, default) 201S3method(df.residual, nls) 202S3method(dfbeta, lm) 203S3method(dfbetas, lm) 204S3method(diff, ts) 205S3method(drop1, default) 206S3method(drop1, glm) 207S3method(drop1, lm) 208S3method(drop1, mlm) 209S3method(dummy.coef, aovlist) 210S3method(dummy.coef, lm) 211S3method(effects, glm) 212S3method(effects, lm) 213S3method(end, default) 214S3method(estVar, SSD) 215S3method(estVar, mlm) 216S3method(extractAIC, aov) 217S3method(extractAIC, coxph) 218S3method(extractAIC, glm) 219S3method(extractAIC, lm) 220S3method(extractAIC, negbin) 221S3method(extractAIC, survreg) 222S3method(family, glm) 223S3method(family, lm) 224S3method(fitted, default) 225S3method(fitted, isoreg) 226S3method(fitted, kmeans) 227S3method(fitted, nls) 228S3method(fitted, smooth.spline) 229S3method(fligner.test, default) 230S3method(fligner.test, formula) 231S3method(format, dist) 232S3method(format, ftable) 233S3method(formula, character) 234S3method(formula, data.frame) 235S3method(formula, default) 236S3method(formula, formula) 237S3method(formula, glm) 238S3method(formula, lm) 239S3method(formula, nls) 240S3method(formula, terms) 241S3method(frequency, default) 242S3method(friedman.test, default) 243S3method(friedman.test, formula) 244S3method(ftable, default) 245S3method(ftable, formula) 246S3method(getCall, default) 247S3method(getInitial, default) 248S3method(getInitial, formula) 249S3method(getInitial, selfStart) 250S3method(hatvalues, lm) 251S3method(hatvalues, smooth.spline) 252S3method(identify, hclust) 253S3method(influence, glm) 254S3method(influence, lm) 255S3method(kernapply, default) 256S3method(kernapply, ts) 257S3method(kernapply, tskernel) 258S3method(kernapply, vector) 259S3method(knots, stepfun) 260S3method(kruskal.test, default) 261S3method(kruskal.test, formula) 262S3method(labels, dendrogram) 263S3method(labels, dist) 264S3method(labels, lm) 265S3method(labels, terms) 266S3method(lag, default) 267S3method(lines, isoreg) 268S3method(lines, stepfun) 269S3method(lines, ts) 270S3method(logLik, Arima) 271S3method(logLik, glm) 272S3method(logLik, lm) 273S3method(logLik, logLik) 274S3method(logLik, nls) 275S3method(makepredictcall, default) 276S3method(makepredictcall, poly) 277S3method(mauchly.test, SSD) 278S3method(mauchly.test, mlm) 279S3method(median, default) 280S3method(merge, dendrogram) 281S3method(model.frame, aovlist) 282S3method(model.frame, default) 283S3method(model.frame, glm) 284S3method(model.frame, lm) 285S3method(model.matrix, default) 286S3method(model.matrix, lm) 287S3method(model.tables, aov) 288S3method(model.tables, aovlist) 289S3method(monthplot, default) 290S3method(monthplot, stl) 291S3method(monthplot, StructTS) 292S3method(monthplot, ts) 293S3method(mood.test, default) 294S3method(mood.test, formula) 295S3method(na.action, default) 296S3method(na.contiguous, default) 297S3method(na.exclude, data.frame) 298S3method(na.exclude, default) 299S3method(na.fail, default) 300S3method(na.omit, data.frame) 301S3method(na.omit, default) 302S3method(na.omit, ts) 303S3method(napredict, default) 304S3method(napredict, exclude) 305S3method(naprint, default) 306S3method(naprint, exclude) 307S3method(naprint, omit) 308S3method(naresid, default) 309S3method(naresid, exclude) 310S3method(NLSstAsymptotic, sortedXyData) 311S3method(NLSstClosestX, sortedXyData) 312S3method(NLSstLfAsymptote, sortedXyData) 313S3method(NLSstRtAsymptote, sortedXyData) 314S3method(nobs, default) 315S3method(nobs, dendrogram) 316S3method(nobs, glm) 317S3method(nobs, lm) 318S3method(nobs, logLik) 319S3method(nobs, nls) 320S3method(Ops, ts) 321S3method(pacf, default) 322S3method(plot, acf) 323S3method(plot, decomposed.ts) 324S3method(plot, dendrogram) 325S3method(plot, density) 326S3method(plot, ecdf) 327S3method(plot, hclust) 328S3method(plot, HoltWinters) 329S3method(plot, isoreg) 330S3method(plot, lm) 331S3method(plot, medpolish) 332S3method(plot, mlm) 333S3method(plot, ppr) 334S3method(plot, prcomp) 335S3method(plot, princomp) 336S3method(plot, profile.nls) 337S3method(plot, spec) 338S3method(plot, stepfun) 339S3method(plot, stl) 340S3method(plot, ts) 341S3method(plot, tskernel) 342S3method(plot, TukeyHSD) 343S3method(ppr, default) 344S3method(ppr, formula) 345S3method(prcomp, default) 346S3method(prcomp, formula) 347S3method(predict, ar) 348S3method(predict, Arima) 349S3method(predict, arima0) 350S3method(predict, glm) 351S3method(predict, HoltWinters) 352S3method(predict, lm) 353S3method(predict, loess) 354S3method(predict, mlm) 355S3method(predict, poly) 356S3method(predict, ppr) 357S3method(predict, nls) 358S3method(predict, prcomp) 359S3method(predict, princomp) 360S3method(predict, smooth.spline) 361S3method(predict, smooth.spline.fit) 362S3method(predict, StructTS) 363S3method(princomp, default) 364S3method(princomp, formula) 365S3method(print, acf) 366S3method(print, anova) 367S3method(print, aov) 368S3method(print, aovlist) 369S3method(print, ar) 370S3method(print, Arima) 371S3method(print, arima0) 372S3method(print, dendrogram) 373S3method(print, density) 374S3method(print, dist) 375S3method(print, dummy_coef) 376S3method(print, dummy_coef_list) 377S3method(print, ecdf) 378S3method(print, factanal) 379S3method(print, family) 380S3method(print, formula) 381S3method(print, ftable) 382S3method(print, glm) 383S3method(print, hclust) 384S3method(print, HoltWinters) 385S3method(print, htest) 386S3method(print, infl) 387S3method(print, integrate) 388S3method(print, isoreg) 389S3method(print, kmeans) 390S3method(print, lm) 391S3method(print, loadings) 392S3method(print, loess) 393S3method(print, logLik) 394S3method(print, medpolish) 395S3method(print, mtable) 396S3method(print, nls) 397S3method(print, pairwise.htest) 398S3method(print, power.htest) 399S3method(print, ppr) 400S3method(print, prcomp) 401S3method(print, princomp) 402S3method(print, smooth.spline) 403S3method(print, stepfun) 404S3method(print, stl) 405S3method(print, StructTS) 406S3method(print, summary.aov) 407S3method(print, summary.aovlist) 408S3method(print, summary.ecdf) 409S3method(print, summary.glm) 410S3method(print, summary.lm) 411S3method(print, summary.loess) 412S3method(print, summary.manova) 413S3method(print, summary.nls) 414S3method(print, summary.ppr) 415S3method(print, summary.prcomp) 416S3method(print, summary.princomp) 417S3method(print, tables_aov) 418S3method(print, TukeyHSD) 419S3method(print, terms) 420S3method(print, ts) 421S3method(print, tskernel) 422S3method(print, tukeyline) 423S3method(print, tukeysmooth) 424S3method(print, xtabs) 425S3method(profile, nls) 426S3method(profiler, nls) 427S3method(proj, aov) 428S3method(proj, aovlist) 429S3method(proj, default) 430S3method(proj, lm) 431S3method(quade.test, default) 432S3method(quade.test, formula) 433S3method(qqnorm, default) 434S3method(qr, lm) 435S3method(quantile, default) 436S3method(quantile, ecdf) 437S3method(quantile, POSIXt) 438S3method(relevel, default) 439S3method(relevel, factor) 440S3method(relevel, ordered) 441S3method(reorder, default) 442S3method(reorder, dendrogram) 443S3method(residuals, default) 444S3method(residuals, glm) 445S3method(residuals, isoreg) 446S3method(residuals, HoltWinters) 447S3method(residuals, lm) 448S3method(residuals, nls) 449S3method(residuals, smooth.spline) 450S3method(residuals, tukeyline) 451S3method(rev, dendrogram) 452S3method(rstandard, glm) 453S3method(rstandard, lm) 454S3method(rstudent, glm) 455S3method(rstudent, lm) 456S3method(screeplot, default) 457S3method(se.contrast, aov) 458S3method(se.contrast, aovlist) 459S3method(selfStart, default) 460S3method(selfStart, formula) 461S3method(sigma, default) 462S3method(sigma, mlm) 463S3method(simulate, lm) 464S3method(sortedXyData, default) 465S3method(str, dendrogram) 466S3method(summary, aov) 467S3method(summary, aovlist) 468S3method(summary, ecdf) 469S3method(summary, glm) 470S3method(summary, infl) 471S3method(summary, lm) 472S3method(summary, loess) 473S3method(summary, manova) 474S3method(summary, mlm) 475S3method(summary, nls) 476S3method(summary, ppr) 477S3method(summary, prcomp) 478S3method(summary, princomp) 479S3method(summary, stepfun) 480S3method(summary, stl) 481S3method(summary, tukeysmooth) 482S3method(SSD, mlm) 483S3method(start, default) 484S3method(str, logLik) 485S3method(t, ts) 486S3method(t.test, default) 487S3method(t.test, formula) 488S3method(terms, default) 489S3method(terms, formula) 490S3method(terms, terms) 491S3method(time, default) 492S3method(time, ts) 493S3method(tsdiag, Arima) 494S3method(tsdiag, arima0) 495S3method(tsdiag, StructTS) 496S3method(tsSmooth, StructTS) 497S3method(TukeyHSD, aov) 498S3method(update, default) 499S3method(update, formula) 500S3method(var.test, default) 501S3method(var.test, formula) 502S3method(variable.names, default) 503S3method(variable.names, lm) 504S3method(vcov, Arima) 505S3method(vcov, aov) 506S3method(vcov, glm) 507S3method(vcov, lm) 508S3method(vcov, summary.lm) 509S3method(vcov, summary.glm) 510S3method(vcov, mlm) 511S3method(vcov, nls) 512S3method(weighted.mean, Date) 513S3method(weighted.mean, default) 514S3method(weighted.mean, difftime) 515S3method(weighted.mean, POSIXct) 516S3method(weighted.mean, POSIXlt) 517S3method(weights, default) 518S3method(weights, glm) 519S3method(weights, nls) 520S3method(wilcox.test, default) 521S3method(wilcox.test, formula) 522S3method(window, default) 523S3method(window, ts) 524S3method("window<-", ts) 525 526## Cannot register in utils ... 527S3method("update", "packageStatus") 528