R version 2.13.0 (2011-04-13)
Copyright (C) 2011 The R Foundation for Statistical Computing
ISBN 3-900051-07-0
Platform: i486-pc-linux-gnu (32-bit)

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> x <- array(list('B'
+ ,'B'
+ ,7
+ ,'A'
+ ,'C'
+ ,5
+ ,'D'
+ ,'A'
+ ,5
+ ,'D'
+ ,'B'
+ ,5
+ ,'A'
+ ,'A'
+ ,8
+ ,'A'
+ ,'B'
+ ,6
+ ,'B'
+ ,'A'
+ ,5
+ ,'B'
+ ,'C'
+ ,6
+ ,'B'
+ ,'D'
+ ,5
+ ,'B'
+ ,'B'
+ ,4
+ ,'A'
+ ,'D'
+ ,6
+ ,'A'
+ ,'D'
+ ,5
+ ,'D'
+ ,'A'
+ ,5
+ ,'A'
+ ,'A'
+ ,6
+ ,'A'
+ ,'D'
+ ,7
+ ,'B'
+ ,'A'
+ ,6
+ ,'B'
+ ,'A'
+ ,7
+ ,'A'
+ ,'C'
+ ,6
+ ,'B'
+ ,'D'
+ ,8
+ ,'A'
+ ,'B'
+ ,7
+ ,'A'
+ ,'D'
+ ,5
+ ,'D'
+ ,'A'
+ ,5
+ ,'B'
+ ,'B'
+ ,7
+ ,'D'
+ ,'A'
+ ,7
+ ,'A'
+ ,'C'
+ ,5
+ ,'D'
+ ,'D'
+ ,4
+ ,'A'
+ ,'C'
+ ,10
+ ,'B'
+ ,'A'
+ ,6
+ ,'B'
+ ,'A'
+ ,5
+ ,'D'
+ ,'B'
+ ,5
+ ,'A'
+ ,'D'
+ ,5
+ ,'C'
+ ,'A'
+ ,5
+ ,'A'
+ ,'D'
+ ,6
+ ,'B'
+ ,'C'
+ ,5
+ ,'B'
+ ,'B'
+ ,5
+ ,'A'
+ ,'D'
+ ,5
+ ,'D'
+ ,'A'
+ ,5
+ ,'B'
+ ,'B'
+ ,5
+ ,'A'
+ ,'D'
+ ,5
+ ,'C'
+ ,'D'
+ ,5
+ ,'B'
+ ,'D'
+ ,5
+ ,'A'
+ ,'A'
+ ,7
+ ,'A'
+ ,'D'
+ ,5
+ ,'D'
+ ,'A'
+ ,6
+ ,'D'
+ ,'C'
+ ,7
+ ,'D'
+ ,'B'
+ ,7
+ ,'B'
+ ,'D'
+ ,5
+ ,'B'
+ ,'C'
+ ,5
+ ,'A'
+ ,'A'
+ ,4
+ ,'C'
+ ,'C'
+ ,5
+ ,'A'
+ ,'D'
+ ,4
+ ,'B'
+ ,'A'
+ ,5
+ ,'D'
+ ,'A'
+ ,5
+ ,'D'
+ ,'A'
+ ,7
+ ,'D'
+ ,'C'
+ ,5
+ ,'B'
+ ,'B'
+ ,5
+ ,'A'
+ ,'B'
+ ,6
+ ,'B'
+ ,'D'
+ ,4
+ ,'D'
+ ,'D'
+ ,6
+ ,'D'
+ ,'A'
+ ,6
+ ,'D'
+ ,'A'
+ ,5
+ ,'C'
+ ,'B'
+ ,7
+ ,'D'
+ ,'B'
+ ,6
+ ,'B'
+ ,'A'
+ ,8
+ ,'B'
+ ,'B'
+ ,7
+ ,'D'
+ ,'C'
+ ,5
+ ,'D'
+ ,'A'
+ ,6
+ ,'D'
+ ,'B'
+ ,6
+ ,'B'
+ ,'B'
+ ,5
+ ,'B'
+ ,'A'
+ ,5
+ ,'B'
+ ,'B'
+ ,5
+ ,'A'
+ ,'A'
+ ,5
+ ,'B'
+ ,'B'
+ ,4
+ ,'B'
+ ,'D'
+ ,6
+ ,'C'
+ ,'C'
+ ,6
+ ,'D'
+ ,'A'
+ ,6
+ ,'A'
+ ,'B'
+ ,6
+ ,'C'
+ ,'A'
+ ,7
+ ,'B'
+ ,'B'
+ ,5
+ ,'C'
+ ,'D'
+ ,7
+ ,'B'
+ ,'C'
+ ,6
+ ,'A'
+ ,'D'
+ ,5
+ ,'B'
+ ,'D'
+ ,5
+ ,'A'
+ ,'B'
+ ,4
+ ,'B'
+ ,'B'
+ ,8
+ ,'B'
+ ,'B'
+ ,8
+ ,'B'
+ ,'B'
+ ,5
+ ,'B'
+ ,'B'
+ ,5
+ ,'C'
+ ,'A'
+ ,6
+ ,'D'
+ ,'A'
+ ,4
+ ,'A'
+ ,'B'
+ ,5
+ ,'C'
+ ,'A'
+ ,5
+ ,'B'
+ ,'B'
+ ,5
+ ,'B'
+ ,'A'
+ ,5
+ ,'C'
+ ,'D'
+ ,6
+ ,'A'
+ ,'C'
+ ,6
+ ,'D'
+ ,'A'
+ ,5
+ ,'B'
+ ,'C'
+ ,6
+ ,'A'
+ ,'C'
+ ,5
+ ,'B'
+ ,'D'
+ ,7
+ ,'A'
+ ,'D'
+ ,5
+ ,'D'
+ ,'A'
+ ,6
+ ,'A'
+ ,'B'
+ ,6
+ ,'D'
+ ,'C'
+ ,6
+ ,'B'
+ ,'A'
+ ,4
+ ,'D'
+ ,'A'
+ ,5
+ ,'A'
+ ,'C'
+ ,5
+ ,'B'
+ ,'A'
+ ,7
+ ,'D'
+ ,'A'
+ ,6
+ ,'D'
+ ,'A'
+ ,9
+ ,'B'
+ ,'A'
+ ,6
+ ,'D'
+ ,'A'
+ ,6
+ ,'C'
+ ,'C'
+ ,5
+ ,'B'
+ ,'A'
+ ,6
+ ,'A'
+ ,'B'
+ ,5
+ ,'A'
+ ,'D'
+ ,8
+ ,'B'
+ ,'A'
+ ,7
+ ,'B'
+ ,'B'
+ ,5
+ ,'B'
+ ,'D'
+ ,7
+ ,'B'
+ ,'A'
+ ,6
+ ,'D'
+ ,'A'
+ ,6
+ ,'B'
+ ,'A'
+ ,9
+ ,'B'
+ ,'C'
+ ,7
+ ,'B'
+ ,'D'
+ ,6
+ ,'B'
+ ,'C'
+ ,5
+ ,'C'
+ ,'C'
+ ,5
+ ,'A'
+ ,'D'
+ ,6
+ ,'A'
+ ,'D'
+ ,6
+ ,'A'
+ ,'C'
+ ,7
+ ,'B'
+ ,'B'
+ ,5
+ ,'C'
+ ,'C'
+ ,5
+ ,'D'
+ ,'A'
+ ,5
+ ,'B'
+ ,'D'
+ ,6
+ ,'B'
+ ,'A'
+ ,4
+ ,'B'
+ ,'B'
+ ,5
+ ,'A'
+ ,'A'
+ ,7
+ ,'D'
+ ,'A'
+ ,5
+ ,'B'
+ ,'A'
+ ,7
+ ,'D'
+ ,'A'
+ ,7
+ ,'B'
+ ,'C'
+ ,6
+ ,'C'
+ ,'B'
+ ,5
+ ,'B'
+ ,'D'
+ ,8
+ ,'A'
+ ,'A'
+ ,5
+ ,'B'
+ ,'B'
+ ,5
+ ,'B'
+ ,'B'
+ ,5
+ ,'A'
+ ,'C'
+ ,6
+ ,'A'
+ ,'B'
+ ,4
+ ,'D'
+ ,'B'
+ ,5
+ ,'D'
+ ,'C'
+ ,5
+ ,'D'
+ ,'A'
+ ,7
+ ,'A'
+ ,'B'
+ ,6
+ ,'C'
+ ,'A'
+ ,7
+ ,'A'
+ ,'D'
+ ,10
+ ,'D'
+ ,'B'
+ ,6
+ ,'D'
+ ,'A'
+ ,8
+ ,'C'
+ ,'A'
+ ,4
+ ,'C'
+ ,'A'
+ ,5
+ ,'B'
+ ,'A'
+ ,6
+ ,'A'
+ ,'C'
+ ,7
+ ,'C'
+ ,'D'
+ ,7
+ ,'D'
+ ,'A'
+ ,6
+ ,'C'
+ ,'A'
+ ,6)
+ ,dim=c(3
+ ,162)
+ ,dimnames=list(c('Score'
+ ,'Treatment'
+ ,'Age')
+ ,1:162))
>  y <- array(NA,dim=c(3,162),dimnames=list(c('Score','Treatment','Age'),1:162))
>  for (i in 1:dim(x)[1])
+  {
+  	for (j in 1:dim(x)[2])
+  	{
+  		y[i,j] <- as.numeric(x[i,j])
+  	}
+  }
There were 50 or more warnings (use warnings() to see the first 50)
> par3 = 'Pearson Chi-Squared'
> par2 = '2'
> par1 = '1'
> main = 'Association Plot'
> #'GNU S' R Code compiled by R2WASP v. 1.0.44 ()
> #Author: Dr. Ian E. Holliday
> #To cite this work: Ian E. Holliday, 2009, 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: 
> #Technical description: 
> library(vcd)
Loading required package: MASS
Loading required package: grid
Loading required package: colorspace
> cat1 <- as.numeric(par1) #
> cat2<- as.numeric(par2) #
> simulate.p.value=FALSE
> if (par3 == 'Exact Pearson Chi-Squared by Simulation') simulate.p.value=TRUE
> x <- t(x)
> (z <- array(unlist(x),dim=c(length(x[,1]),length(x[1,]))))
       [,1] [,2] [,3]
  [1,] "B"  "B"  "7" 
  [2,] "A"  "C"  "5" 
  [3,] "D"  "A"  "5" 
  [4,] "D"  "B"  "5" 
  [5,] "A"  "A"  "8" 
  [6,] "A"  "B"  "6" 
  [7,] "B"  "A"  "5" 
  [8,] "B"  "C"  "6" 
  [9,] "B"  "D"  "5" 
 [10,] "B"  "B"  "4" 
 [11,] "A"  "D"  "6" 
 [12,] "A"  "D"  "5" 
 [13,] "D"  "A"  "5" 
 [14,] "A"  "A"  "6" 
 [15,] "A"  "D"  "7" 
 [16,] "B"  "A"  "6" 
 [17,] "B"  "A"  "7" 
 [18,] "A"  "C"  "6" 
 [19,] "B"  "D"  "8" 
 [20,] "A"  "B"  "7" 
 [21,] "A"  "D"  "5" 
 [22,] "D"  "A"  "5" 
 [23,] "B"  "B"  "7" 
 [24,] "D"  "A"  "7" 
 [25,] "A"  "C"  "5" 
 [26,] "D"  "D"  "4" 
 [27,] "A"  "C"  "10"
 [28,] "B"  "A"  "6" 
 [29,] "B"  "A"  "5" 
 [30,] "D"  "B"  "5" 
 [31,] "A"  "D"  "5" 
 [32,] "C"  "A"  "5" 
 [33,] "A"  "D"  "6" 
 [34,] "B"  "C"  "5" 
 [35,] "B"  "B"  "5" 
 [36,] "A"  "D"  "5" 
 [37,] "D"  "A"  "5" 
 [38,] "B"  "B"  "5" 
 [39,] "A"  "D"  "5" 
 [40,] "C"  "D"  "5" 
 [41,] "B"  "D"  "5" 
 [42,] "A"  "A"  "7" 
 [43,] "A"  "D"  "5" 
 [44,] "D"  "A"  "6" 
 [45,] "D"  "C"  "7" 
 [46,] "D"  "B"  "7" 
 [47,] "B"  "D"  "5" 
 [48,] "B"  "C"  "5" 
 [49,] "A"  "A"  "4" 
 [50,] "C"  "C"  "5" 
 [51,] "A"  "D"  "4" 
 [52,] "B"  "A"  "5" 
 [53,] "D"  "A"  "5" 
 [54,] "D"  "A"  "7" 
 [55,] "D"  "C"  "5" 
 [56,] "B"  "B"  "5" 
 [57,] "A"  "B"  "6" 
 [58,] "B"  "D"  "4" 
 [59,] "D"  "D"  "6" 
 [60,] "D"  "A"  "6" 
 [61,] "D"  "A"  "5" 
 [62,] "C"  "B"  "7" 
 [63,] "D"  "B"  "6" 
 [64,] "B"  "A"  "8" 
 [65,] "B"  "B"  "7" 
 [66,] "D"  "C"  "5" 
 [67,] "D"  "A"  "6" 
 [68,] "D"  "B"  "6" 
 [69,] "B"  "B"  "5" 
 [70,] "B"  "A"  "5" 
 [71,] "B"  "B"  "5" 
 [72,] "A"  "A"  "5" 
 [73,] "B"  "B"  "4" 
 [74,] "B"  "D"  "6" 
 [75,] "C"  "C"  "6" 
 [76,] "D"  "A"  "6" 
 [77,] "A"  "B"  "6" 
 [78,] "C"  "A"  "7" 
 [79,] "B"  "B"  "5" 
 [80,] "C"  "D"  "7" 
 [81,] "B"  "C"  "6" 
 [82,] "A"  "D"  "5" 
 [83,] "B"  "D"  "5" 
 [84,] "A"  "B"  "4" 
 [85,] "B"  "B"  "8" 
 [86,] "B"  "B"  "8" 
 [87,] "B"  "B"  "5" 
 [88,] "B"  "B"  "5" 
 [89,] "C"  "A"  "6" 
 [90,] "D"  "A"  "4" 
 [91,] "A"  "B"  "5" 
 [92,] "C"  "A"  "5" 
 [93,] "B"  "B"  "5" 
 [94,] "B"  "A"  "5" 
 [95,] "C"  "D"  "6" 
 [96,] "A"  "C"  "6" 
 [97,] "D"  "A"  "5" 
 [98,] "B"  "C"  "6" 
 [99,] "A"  "C"  "5" 
[100,] "B"  "D"  "7" 
[101,] "A"  "D"  "5" 
[102,] "D"  "A"  "6" 
[103,] "A"  "B"  "6" 
[104,] "D"  "C"  "6" 
[105,] "B"  "A"  "4" 
[106,] "D"  "A"  "5" 
[107,] "A"  "C"  "5" 
[108,] "B"  "A"  "7" 
[109,] "D"  "A"  "6" 
[110,] "D"  "A"  "9" 
[111,] "B"  "A"  "6" 
[112,] "D"  "A"  "6" 
[113,] "C"  "C"  "5" 
[114,] "B"  "A"  "6" 
[115,] "A"  "B"  "5" 
[116,] "A"  "D"  "8" 
[117,] "B"  "A"  "7" 
[118,] "B"  "B"  "5" 
[119,] "B"  "D"  "7" 
[120,] "B"  "A"  "6" 
[121,] "D"  "A"  "6" 
[122,] "B"  "A"  "9" 
[123,] "B"  "C"  "7" 
[124,] "B"  "D"  "6" 
[125,] "B"  "C"  "5" 
[126,] "C"  "C"  "5" 
[127,] "A"  "D"  "6" 
[128,] "A"  "D"  "6" 
[129,] "A"  "C"  "7" 
[130,] "B"  "B"  "5" 
[131,] "C"  "C"  "5" 
[132,] "D"  "A"  "5" 
[133,] "B"  "D"  "6" 
[134,] "B"  "A"  "4" 
[135,] "B"  "B"  "5" 
[136,] "A"  "A"  "7" 
[137,] "D"  "A"  "5" 
[138,] "B"  "A"  "7" 
[139,] "D"  "A"  "7" 
[140,] "B"  "C"  "6" 
[141,] "C"  "B"  "5" 
[142,] "B"  "D"  "8" 
[143,] "A"  "A"  "5" 
[144,] "B"  "B"  "5" 
[145,] "B"  "B"  "5" 
[146,] "A"  "C"  "6" 
[147,] "A"  "B"  "4" 
[148,] "D"  "B"  "5" 
[149,] "D"  "C"  "5" 
[150,] "D"  "A"  "7" 
[151,] "A"  "B"  "6" 
[152,] "C"  "A"  "7" 
[153,] "A"  "D"  "10"
[154,] "D"  "B"  "6" 
[155,] "D"  "A"  "8" 
[156,] "C"  "A"  "4" 
[157,] "C"  "A"  "5" 
[158,] "B"  "A"  "6" 
[159,] "A"  "C"  "7" 
[160,] "C"  "D"  "7" 
[161,] "D"  "A"  "6" 
[162,] "C"  "A"  "6" 
> (table1 <- table(z[,cat1],z[,cat2]))
   
     A  B  C  D
  A  7 10 10 16
  B 19 21  8 12
  C  8  2  5  4
  D 26  7  5  2
> (V1<-dimnames(y)[[1]][cat1])
[1] "Score"
> (V2<-dimnames(y)[[1]][cat2])
[1] "Treatment"
> postscript(file="/var/wessaorg/rcomp/tmp/14h821321381452.ps",horizontal=F,onefile=F,pagecentre=F,paper="special",width=8.3333333333333,height=5.5555555555556) 
> assoc(ftable(z[,cat1],z[,cat2],row.vars=1,dnn=c(V1,V2)),shade=T)
> dev.off()
null device 
          1 
> 
> #Note: the /var/wessaorg/rcomp/createtable file can be downloaded at http://www.wessa.net/cretab
> load(file="/var/wessaorg/rcomp/createtable")
> 
> a<-table.start()
> a<-table.row.start(a)
> a<-table.element(a,'Tabulation of Results',ncol(table1)+1,TRUE)
> a<-table.row.end(a)
> a<-table.row.start(a)
> a<-table.element(a,paste(V1,' x ', V2),ncol(table1)+1,TRUE)
> a<-table.row.end(a)
> a<-table.row.start(a)
> a<-table.element(a, ' ', 1,TRUE)
> for(nc in 1:ncol(table1)){
+ a<-table.element(a, colnames(table1)[nc], 1, TRUE)
+ }
> a<-table.row.end(a)
> for(nr in 1:nrow(table1) ){
+ a<-table.element(a, rownames(table1)[nr], 1, TRUE)
+ for(nc in 1:ncol(table1) ){
+ a<-table.element(a, table1[nr, nc], 1, FALSE)
+ }
+ a<-table.row.end(a)
+ }
> a<-table.end(a)
> table.save(a,file="/var/wessaorg/rcomp/tmp/2h1ah1321381452.tab") 
> (cst<-chisq.test(table1, simulate.p.value=simulate.p.value) )

	Pearson's Chi-squared test

data:  table1 
X-squared = 32.1927, df = 9, p-value = 0.0001844

Warning message:
In chisq.test(table1, simulate.p.value = simulate.p.value) :
  Chi-squared approximation may be incorrect
> if (par3 == 'McNemar Chi-Squared') {
+ (cst <- mcnemar.test(table1))
+ }
> if (par3=='Fisher Exact Test') {
+ (cst <- fisher.test(table1))
+ }
> if ((par3 != 'McNemar Chi-Squared') & (par3 != 'Fisher Exact Test')) {
+ a<-table.start()
+ a<-table.row.start(a)
+ a<-table.element(a,'Tabulation of Expected Results',ncol(table1)+1,TRUE)
+ a<-table.row.end(a)
+ a<-table.row.start(a)
+ a<-table.element(a,paste(V1,' x ', V2),ncol(table1)+1,TRUE)
+ a<-table.row.end(a)
+ a<-table.row.start(a)
+ a<-table.element(a, ' ', 1,TRUE)
+ for(nc in 1:ncol(table1)){
+ a<-table.element(a, colnames(table1)[nc], 1, TRUE)
+ }
+ a<-table.row.end(a)
+ for(nr in 1:nrow(table1) ){
+ a<-table.element(a, rownames(table1)[nr], 1, TRUE)
+ for(nc in 1:ncol(table1) ){
+ a<-table.element(a, round(cst$expected[nr, nc], digits=2), 1, FALSE)
+ }
+ a<-table.row.end(a)
+ }
+ a<-table.end(a)
+ table.save(a,file="/var/wessaorg/rcomp/tmp/3liyl1321381452.tab") 
+ }
> a<-table.start()
> a<-table.row.start(a)
> a<-table.element(a,'Statistical Results',2,TRUE)
> a<-table.row.end(a)
> a<-table.row.start(a)
> a<-table.element(a, cst$method, 2,TRUE)
> a<-table.row.end(a)
> a<-table.row.start(a)
> if (par3=='Pearson Chi-Squared') a<-table.element(a, 'Pearson Chi Square Statistic', 1, TRUE)
> if (par3=='Exact Pearson Chi-Squared by Simulation') a<-table.element(a, 'Exact Pearson Chi Square Statistic', 1, TRUE)
> if (par3=='McNemar Chi-Squared') a<-table.element(a, 'McNemar Chi Square Statistic', 1, TRUE)
> if (par3=='Fisher Exact Test') a<-table.element(a, 'Odds Ratio', 1, TRUE)
> if (par3=='Fisher Exact Test') {
+ if ((ncol(table1) == 2) & (nrow(table1) == 2)) {
+ a<-table.element(a, round(cst$estimate, digits=2), 1,FALSE)
+ } else {
+ a<-table.element(a, '--', 1,FALSE)
+ }
+ } else {
+ a<-table.element(a, round(cst$statistic, digits=2), 1,FALSE)
+ }
> a<-table.row.end(a)
> if(!simulate.p.value){
+ if(par3!='Fisher Exact Test') {
+ a<-table.row.start(a)
+ a<-table.element(a, 'Degrees of Freedom', 1, TRUE)
+ a<-table.element(a, cst$parameter, 1,FALSE)
+ a<-table.row.end(a)
+ }
+ }
> a<-table.row.start(a)
> a<-table.element(a, 'P value', 1, TRUE)
> a<-table.element(a, round(cst$p.value, digits=2), 1,FALSE)
> a<-table.row.end(a)
> a<-table.end(a)
> table.save(a,file="/var/wessaorg/rcomp/tmp/4kmd51321381452.tab") 
> 
> try(system("convert tmp/14h821321381452.ps tmp/14h821321381452.png",intern=TRUE))
character(0)
> 
> 
> proc.time()
   user  system elapsed 
  1.046   0.095   1.131