R version 3.0.2 (2013-09-25) -- "Frisbee Sailing"
Copyright (C) 2013 The R Foundation for Statistical Computing
Platform: i686-pc-linux-gnu (32-bit)

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> x <- array(list(1,'T',1,'T',1,'T',0,'T',1,'T',1,'T',1,'T',1,'T',1,'T',1,'T',0,'T',1,'T',1,'T',1,'T',0,'T',1,'T',1,'T',1,'T',1,'T',0,'T',1,'T',1,'T',0,'T',0,'T',1,'T',0,'T',1,'T',0,'T',0,'T',1,'T',0,'T',1,'T',0,'T',0,'T',0,'T',1,'T',1,'T',1,'E',1,'E',1,'E',1,'E',1,'E',1,'E',1,'E',0,'E',1,'E',1,'E',1,'E',1,'E',0,'E',1,'E',1,'E',1,'E',0,'E',1,'E',1,'E',1,'E',1,'E',0,'E',0,'E',1,'E',1,'E',1,'E',0,'E',0,'E',1,'E',1,'E',0,'E',1,'E',1,'E',1,'S',1,'S',1,'S',1,'S',1,'S',0,'S',0,'S',1,'S',0,'S',1,'S',0,'S',0,'S',0,'S',0,'S',0,'S',0,'S',0,'S',1,'S',0,'S',0,'S',1,'S',1,'S',1,'S',1,'S',1,'S',1,'S',1,'S',1,'S',0,'S',0,'S',1,'S',0,'S',0,'S',0,'S',1,'S'),dim=c(2,105),dimnames=list(c('score','treatment'),1:105))
>  y <- array(NA,dim=c(2,105),dimnames=list(c('score','treatment'),1:105))
>  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'
> par3 <- 'Pearson Chi-Squared'
> par2 <- '2'
> par1 <- '1'
> #'GNU S' R Code compiled by R2WASP v. 1.2.327 ()
> #Author: root
> #To cite this work: Wessa P., 2013, Chi-Squared Test, McNemar Test, and Fisher Exact Test (v1.0.7) in Free Statistics Software (v$_version), Office for Research Development and Education, URL http://www.wessa.net/rwasp_chi_squared_tests.wasp/
> #Source of accompanying publication: 
> #
> 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]
  [1,] "1"  "T" 
  [2,] "1"  "T" 
  [3,] "1"  "T" 
  [4,] "0"  "T" 
  [5,] "1"  "T" 
  [6,] "1"  "T" 
  [7,] "1"  "T" 
  [8,] "1"  "T" 
  [9,] "1"  "T" 
 [10,] "1"  "T" 
 [11,] "0"  "T" 
 [12,] "1"  "T" 
 [13,] "1"  "T" 
 [14,] "1"  "T" 
 [15,] "0"  "T" 
 [16,] "1"  "T" 
 [17,] "1"  "T" 
 [18,] "1"  "T" 
 [19,] "1"  "T" 
 [20,] "0"  "T" 
 [21,] "1"  "T" 
 [22,] "1"  "T" 
 [23,] "0"  "T" 
 [24,] "0"  "T" 
 [25,] "1"  "T" 
 [26,] "0"  "T" 
 [27,] "1"  "T" 
 [28,] "0"  "T" 
 [29,] "0"  "T" 
 [30,] "1"  "T" 
 [31,] "0"  "T" 
 [32,] "1"  "T" 
 [33,] "0"  "T" 
 [34,] "0"  "T" 
 [35,] "0"  "T" 
 [36,] "1"  "T" 
 [37,] "1"  "T" 
 [38,] "1"  "E" 
 [39,] "1"  "E" 
 [40,] "1"  "E" 
 [41,] "1"  "E" 
 [42,] "1"  "E" 
 [43,] "1"  "E" 
 [44,] "1"  "E" 
 [45,] "0"  "E" 
 [46,] "1"  "E" 
 [47,] "1"  "E" 
 [48,] "1"  "E" 
 [49,] "1"  "E" 
 [50,] "0"  "E" 
 [51,] "1"  "E" 
 [52,] "1"  "E" 
 [53,] "1"  "E" 
 [54,] "0"  "E" 
 [55,] "1"  "E" 
 [56,] "1"  "E" 
 [57,] "1"  "E" 
 [58,] "1"  "E" 
 [59,] "0"  "E" 
 [60,] "0"  "E" 
 [61,] "1"  "E" 
 [62,] "1"  "E" 
 [63,] "1"  "E" 
 [64,] "0"  "E" 
 [65,] "0"  "E" 
 [66,] "1"  "E" 
 [67,] "1"  "E" 
 [68,] "0"  "E" 
 [69,] "1"  "E" 
 [70,] "1"  "E" 
 [71,] "1"  "S" 
 [72,] "1"  "S" 
 [73,] "1"  "S" 
 [74,] "1"  "S" 
 [75,] "1"  "S" 
 [76,] "0"  "S" 
 [77,] "0"  "S" 
 [78,] "1"  "S" 
 [79,] "0"  "S" 
 [80,] "1"  "S" 
 [81,] "0"  "S" 
 [82,] "0"  "S" 
 [83,] "0"  "S" 
 [84,] "0"  "S" 
 [85,] "0"  "S" 
 [86,] "0"  "S" 
 [87,] "0"  "S" 
 [88,] "1"  "S" 
 [89,] "0"  "S" 
 [90,] "0"  "S" 
 [91,] "1"  "S" 
 [92,] "1"  "S" 
 [93,] "1"  "S" 
 [94,] "1"  "S" 
 [95,] "1"  "S" 
 [96,] "1"  "S" 
 [97,] "1"  "S" 
 [98,] "1"  "S" 
 [99,] "0"  "S" 
[100,] "0"  "S" 
[101,] "1"  "S" 
[102,] "0"  "S" 
[103,] "0"  "S" 
[104,] "0"  "S" 
[105,] "1"  "S" 
> (table1 <- table(z[,cat1],z[,cat2]))
   
     E  S  T
  0  8 17 13
  1 25 18 24
> (V1<-dimnames(y)[[1]][cat1])
[1] "score"
> (V2<-dimnames(y)[[1]][cat2])
[1] "treatment"
> postscript(file="/var/wessaorg/rcomp/tmp/15drr1381510175.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/2mthz1381510175.tab") 
> (cst<-chisq.test(table1, simulate.p.value=simulate.p.value) )

	Pearson's Chi-squared test

data:  table1
X-squared = 4.3811, df = 2, p-value = 0.1119

> 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$expected[nr, nc], digits=2), 1, FALSE)
+ }
+ a<-table.row.end(a)
+ }
+ a<-table.end(a)
+ table.save(a,file="/var/wessaorg/rcomp/tmp/3gsa71381510175.tab") 
+ }
> a<-table.start()
> a<-table.row.start(a)
> a<-table.element(a,'Statistical Results',2,TRUE)
> a<-table.row.end(a)
> a<-table.row.start(a)
> a<-table.element(a, cst$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/4cwh91381510175.tab") 
> 
> try(system("convert tmp/15drr1381510175.ps tmp/15drr1381510175.png",intern=TRUE))
character(0)
> 
> 
> proc.time()
   user  system elapsed 
  1.954   0.373   2.296