R version 2.9.0 (2009-04-17)
Copyright (C) 2009 The R Foundation for Statistical Computing
ISBN 3-900051-07-0

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> x <- array(list(-999.00
+ ,6654.00
+ ,3.00
+ ,6.30
+ ,1.00
+ ,3.00
+ ,-999.00
+ ,3.39
+ ,1.00
+ ,-999.00
+ ,0.92
+ ,3.00
+ ,2.10
+ ,2547.00
+ ,4.00
+ ,9.10
+ ,10.55
+ ,4.00
+ ,15.80
+ ,0.02
+ ,1.00
+ ,5.20
+ ,160.00
+ ,4.00
+ ,10.90
+ ,3.30
+ ,1.00
+ ,8.30
+ ,52.16
+ ,1.00
+ ,11.00
+ ,0.43
+ ,4.00
+ ,3.20
+ ,465.00
+ ,5.00
+ ,7.60
+ ,0.55
+ ,2.00
+ ,-999.00
+ ,187.10
+ ,5.00
+ ,6.30
+ ,0.08
+ ,1.00
+ ,8.60
+ ,3.00
+ ,2.00
+ ,6.60
+ ,0.79
+ ,2.00
+ ,9.50
+ ,0.20
+ ,2.00
+ ,4.80
+ ,1.41
+ ,1.00
+ ,12.00
+ ,60.00
+ ,1.00
+ ,-999.00
+ ,529.00
+ ,5.00
+ ,3.30
+ ,27.66
+ ,5.00
+ ,11.00
+ ,0.12
+ ,2.00
+ ,-999.00
+ ,207.00
+ ,1.00
+ ,4.70
+ ,85.00
+ ,1.00
+ ,-999.00
+ ,36.33
+ ,1.00
+ ,10.40
+ ,0.10
+ ,3.00
+ ,7.40
+ ,1.04
+ ,4.00
+ ,2.10
+ ,521.00
+ ,5.00
+ ,-999.00
+ ,100.00
+ ,1.00
+ ,-999.00
+ ,35.00
+ ,4.00
+ ,7.70
+ ,0.01
+ ,4.00
+ ,17.90
+ ,0.01
+ ,1.00
+ ,6.10
+ ,62.00
+ ,1.00
+ ,8.20
+ ,0.12
+ ,1.00
+ ,8.40
+ ,1.35
+ ,3.00
+ ,11.90
+ ,0.02
+ ,3.00
+ ,10.80
+ ,0.05
+ ,3.00
+ ,13.80
+ ,1.70
+ ,1.00
+ ,14.30
+ ,3.50
+ ,1.00
+ ,-999.00
+ ,250.00
+ ,5.00
+ ,15.20
+ ,0.48
+ ,2.00
+ ,10.00
+ ,10.00
+ ,4.00
+ ,11.90
+ ,1.62
+ ,2.00
+ ,6.50
+ ,192.00
+ ,4.00
+ ,7.50
+ ,2.50
+ ,5.00
+ ,-999.00
+ ,4.29
+ ,2.00
+ ,10.60
+ ,0.28
+ ,3.00
+ ,7.40
+ ,4.24
+ ,1.00
+ ,8.40
+ ,6.80
+ ,2.00
+ ,5.70
+ ,0.75
+ ,2.00
+ ,4.90
+ ,3.60
+ ,3.00
+ ,-999.00
+ ,14.83
+ ,5.00
+ ,3.20
+ ,55.50
+ ,5.00
+ ,-999.00
+ ,1.40
+ ,2.00
+ ,8.10
+ ,0.06
+ ,2.00
+ ,11.00
+ ,0.90
+ ,2.00
+ ,4.90
+ ,2.00
+ ,3.00
+ ,13.20
+ ,0.10
+ ,2.00
+ ,9.70
+ ,4.19
+ ,4.00
+ ,12.80
+ ,3.50
+ ,1.00
+ ,-999.00
+ ,4.05
+ ,1.00)
+ ,dim=c(3
+ ,62)
+ ,dimnames=list(c('SWS'
+ ,'Wb'
+ ,'D')
+ ,1:62))
>  y <- array(NA,dim=c(3,62),dimnames=list(c('SWS','Wb','D'),1:62))
>  for (i in 1:dim(x)[1])
+  {
+  	for (j in 1:dim(x)[2])
+  	{
+  		y[i,j] <- as.numeric(x[i,j])
+  	}
+  }
> #'GNU S' R Code compiled by R2WASP v. 1.0.44 ()
> #Author: Prof. Dr. P. Wessa
> #To cite this work: AUTHOR(S), (YEAR), YOUR SOFTWARE TITLE (vNUMBER) in Free Statistics Software (v$_version), Office for Research Development and Education, URL http://www.wessa.net/rwasp_YOURPAGE.wasp/
> #Source of accompanying publication: Office for Research, Development, and Education
> #Technical description: 
> library(brglm)
Loading required package: profileModel
> roc.plot <- function (sd, sdc, newplot = TRUE, ...)
+ {
+ sall <- sort(c(sd, sdc))
+ sens <- 0
+ specc <- 0
+ for (i in length(sall):1) {
+ sens <- c(sens, mean(sd >= sall[i], na.rm = T))
+ specc <- c(specc, mean(sdc >= sall[i], na.rm = T))
+ }
+ if (newplot) {
+ plot(specc, sens, xlim = c(0, 1), ylim = c(0, 1), type = 'l',
+ xlab = '1-specificity', ylab = 'sensitivity', main = 'ROC plot', ...)
+ abline(0, 1)
+ }
+ else lines(specc, sens, ...)
+ npoints <- length(sens)
+ area <- sum(0.5 * (sens[-1] + sens[-npoints]) * (specc[-1] -
+ specc[-npoints]))
+ lift <- (sens - specc)[-1]
+ cutoff <- sall[lift == max(lift)][1]
+ sensopt <- sens[-1][lift == max(lift)][1]
+ specopt <- 1 - specc[-1][lift == max(lift)][1]
+ list(area = area, cutoff = cutoff, sensopt = sensopt, specopt = specopt)
+ }
> roc.analysis <- function (object, newdata = NULL, newplot = TRUE, ...)
+ {
+ if (is.null(newdata)) {
+ sd <- object$fitted[object$y == 1]
+ sdc <- object$fitted[object$y == 0]
+ }
+ else {
+ sd <- predict(object, newdata, type = 'response')[newdata$y ==
+ 1]
+ sdc <- predict(object, newdata, type = 'response')[newdata$y ==
+ 0]
+ }
+ roc.plot(sd, sdc, newplot, ...)
+ }
> hosmerlem <- function (y, yhat, g = 10)
+ {
+ cutyhat <- cut(yhat, breaks = quantile(yhat, probs = seq(0,
+ 1, 1/g)), include.lowest = T)
+ obs <- xtabs(cbind(1 - y, y) ~ cutyhat)
+ expect <- xtabs(cbind(1 - yhat, yhat) ~ cutyhat)
+ chisq <- sum((obs - expect)^2/expect)
+ P <- 1 - pchisq(chisq, g - 2)
+ c('X^2' = chisq, Df = g - 2, 'P(>Chi)' = P)
+ }
> x <- as.data.frame(t(y))
> r <- brglm(x)
Error in eval(expr, envir, enclos) : y values must be 0 <= y <= 1
Calls: brglm -> fit.proc -> eval -> eval
Execution halted