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(41
+ ,12
+ ,39
+ ,11
+ ,30
+ ,14
+ ,31
+ ,12
+ ,34
+ ,21
+ ,35
+ ,12
+ ,39
+ ,22
+ ,34
+ ,11
+ ,36
+ ,10
+ ,37
+ ,13
+ ,38
+ ,10
+ ,36
+ ,8
+ ,38
+ ,15
+ ,39
+ ,14
+ ,33
+ ,10
+ ,32
+ ,14
+ ,36
+ ,14
+ ,38
+ ,11
+ ,39
+ ,10
+ ,32
+ ,13
+ ,32
+ ,7
+ ,31
+ ,14
+ ,39
+ ,12
+ ,37
+ ,14
+ ,39
+ ,11
+ ,41
+ ,9
+ ,36
+ ,11
+ ,33
+ ,15
+ ,33
+ ,14
+ ,34
+ ,13
+ ,31
+ ,9
+ ,27
+ ,15
+ ,37
+ ,10
+ ,34
+ ,11
+ ,34
+ ,13
+ ,32
+ ,8
+ ,29
+ ,20
+ ,36
+ ,12
+ ,29
+ ,10
+ ,35
+ ,10
+ ,37
+ ,9
+ ,34
+ ,14
+ ,38
+ ,8
+ ,35
+ ,14
+ ,38
+ ,11
+ ,37
+ ,13
+ ,38
+ ,9
+ ,33
+ ,11
+ ,36
+ ,15
+ ,38
+ ,11
+ ,32
+ ,10
+ ,32
+ ,14
+ ,32
+ ,18
+ ,34
+ ,14
+ ,32
+ ,11
+ ,37
+ ,12
+ ,39
+ ,13
+ ,29
+ ,9
+ ,37
+ ,10
+ ,35
+ ,15
+ ,30
+ ,20
+ ,38
+ ,12
+ ,34
+ ,12
+ ,31
+ ,14
+ ,34
+ ,13
+ ,35
+ ,11
+ ,36
+ ,17
+ ,30
+ ,12
+ ,39
+ ,13
+ ,35
+ ,14
+ ,38
+ ,13
+ ,31
+ ,15
+ ,34
+ ,13
+ ,38
+ ,10
+ ,34
+ ,11
+ ,39
+ ,19
+ ,37
+ ,13
+ ,34
+ ,17
+ ,28
+ ,13
+ ,37
+ ,9
+ ,33
+ ,11
+ ,37
+ ,10
+ ,35
+ ,9
+ ,37
+ ,12
+ ,32
+ ,12
+ ,33
+ ,13
+ ,38
+ ,13
+ ,33
+ ,12
+ ,29
+ ,15
+ ,33
+ ,22
+ ,31
+ ,13
+ ,36
+ ,15
+ ,35
+ ,13
+ ,32
+ ,15
+ ,29
+ ,10
+ ,39
+ ,11
+ ,37
+ ,16
+ ,35
+ ,11
+ ,37
+ ,11
+ ,32
+ ,10
+ ,38
+ ,10
+ ,37
+ ,16
+ ,36
+ ,12
+ ,32
+ ,11
+ ,33
+ ,16
+ ,40
+ ,19
+ ,38
+ ,11
+ ,41
+ ,16
+ ,36
+ ,15
+ ,43
+ ,24
+ ,30
+ ,14
+ ,31
+ ,15
+ ,32
+ ,11
+ ,32
+ ,15
+ ,37
+ ,12
+ ,37
+ ,10
+ ,33
+ ,14
+ ,34
+ ,13
+ ,33
+ ,9
+ ,38
+ ,15
+ ,33
+ ,15
+ ,31
+ ,14
+ ,38
+ ,11
+ ,37
+ ,8
+ ,33
+ ,11
+ ,31
+ ,11
+ ,39
+ ,8
+ ,44
+ ,10
+ ,33
+ ,11
+ ,35
+ ,13
+ ,32
+ ,11
+ ,28
+ ,20
+ ,40
+ ,10
+ ,27
+ ,15
+ ,37
+ ,12
+ ,32
+ ,14
+ ,28
+ ,23
+ ,34
+ ,14
+ ,30
+ ,16
+ ,35
+ ,11
+ ,31
+ ,12
+ ,32
+ ,10
+ ,30
+ ,14
+ ,30
+ ,12
+ ,31
+ ,12
+ ,40
+ ,11
+ ,32
+ ,12
+ ,36
+ ,13
+ ,32
+ ,11
+ ,35
+ ,19
+ ,38
+ ,12
+ ,42
+ ,17
+ ,34
+ ,9
+ ,35
+ ,12
+ ,35
+ ,19
+ ,33
+ ,18
+ ,36
+ ,15
+ ,32
+ ,14
+ ,33
+ ,11
+ ,34
+ ,9
+ ,32
+ ,18
+ ,34
+ ,16)
+ ,dim=c(2
+ ,162)
+ ,dimnames=list(c('Connected'
+ ,'Depression')
+ ,1:162))
>  y <- array(NA,dim=c(2,162),dimnames=list(c('Connected','Depression'),1:162))
>  for (i in 1:dim(x)[1])
+  {
+  	for (j in 1:dim(x)[2])
+  	{
+  		y[i,j] <- as.numeric(x[i,j])
+  	}
+  }
> 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]
  [1,]   41   12
  [2,]   39   11
  [3,]   30   14
  [4,]   31   12
  [5,]   34   21
  [6,]   35   12
  [7,]   39   22
  [8,]   34   11
  [9,]   36   10
 [10,]   37   13
 [11,]   38   10
 [12,]   36    8
 [13,]   38   15
 [14,]   39   14
 [15,]   33   10
 [16,]   32   14
 [17,]   36   14
 [18,]   38   11
 [19,]   39   10
 [20,]   32   13
 [21,]   32    7
 [22,]   31   14
 [23,]   39   12
 [24,]   37   14
 [25,]   39   11
 [26,]   41    9
 [27,]   36   11
 [28,]   33   15
 [29,]   33   14
 [30,]   34   13
 [31,]   31    9
 [32,]   27   15
 [33,]   37   10
 [34,]   34   11
 [35,]   34   13
 [36,]   32    8
 [37,]   29   20
 [38,]   36   12
 [39,]   29   10
 [40,]   35   10
 [41,]   37    9
 [42,]   34   14
 [43,]   38    8
 [44,]   35   14
 [45,]   38   11
 [46,]   37   13
 [47,]   38    9
 [48,]   33   11
 [49,]   36   15
 [50,]   38   11
 [51,]   32   10
 [52,]   32   14
 [53,]   32   18
 [54,]   34   14
 [55,]   32   11
 [56,]   37   12
 [57,]   39   13
 [58,]   29    9
 [59,]   37   10
 [60,]   35   15
 [61,]   30   20
 [62,]   38   12
 [63,]   34   12
 [64,]   31   14
 [65,]   34   13
 [66,]   35   11
 [67,]   36   17
 [68,]   30   12
 [69,]   39   13
 [70,]   35   14
 [71,]   38   13
 [72,]   31   15
 [73,]   34   13
 [74,]   38   10
 [75,]   34   11
 [76,]   39   19
 [77,]   37   13
 [78,]   34   17
 [79,]   28   13
 [80,]   37    9
 [81,]   33   11
 [82,]   37   10
 [83,]   35    9
 [84,]   37   12
 [85,]   32   12
 [86,]   33   13
 [87,]   38   13
 [88,]   33   12
 [89,]   29   15
 [90,]   33   22
 [91,]   31   13
 [92,]   36   15
 [93,]   35   13
 [94,]   32   15
 [95,]   29   10
 [96,]   39   11
 [97,]   37   16
 [98,]   35   11
 [99,]   37   11
[100,]   32   10
[101,]   38   10
[102,]   37   16
[103,]   36   12
[104,]   32   11
[105,]   33   16
[106,]   40   19
[107,]   38   11
[108,]   41   16
[109,]   36   15
[110,]   43   24
[111,]   30   14
[112,]   31   15
[113,]   32   11
[114,]   32   15
[115,]   37   12
[116,]   37   10
[117,]   33   14
[118,]   34   13
[119,]   33    9
[120,]   38   15
[121,]   33   15
[122,]   31   14
[123,]   38   11
[124,]   37    8
[125,]   33   11
[126,]   31   11
[127,]   39    8
[128,]   44   10
[129,]   33   11
[130,]   35   13
[131,]   32   11
[132,]   28   20
[133,]   40   10
[134,]   27   15
[135,]   37   12
[136,]   32   14
[137,]   28   23
[138,]   34   14
[139,]   30   16
[140,]   35   11
[141,]   31   12
[142,]   32   10
[143,]   30   14
[144,]   30   12
[145,]   31   12
[146,]   40   11
[147,]   32   12
[148,]   36   13
[149,]   32   11
[150,]   35   19
[151,]   38   12
[152,]   42   17
[153,]   34    9
[154,]   35   12
[155,]   35   19
[156,]   33   18
[157,]   36   15
[158,]   32   14
[159,]   33   11
[160,]   34    9
[161,]   32   18
[162,]   34   16
> (table1 <- table(z[,cat1],z[,cat2]))
    
     7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24
  27 0 0 0  0  0  0  0  0  2  0  0  0  0  0  0  0  0  0
  28 0 0 0  0  0  0  1  0  0  0  0  0  0  1  0  0  1  0
  29 0 0 1  2  0  0  0  0  1  0  0  0  0  1  0  0  0  0
  30 0 0 0  0  0  2  0  3  0  1  0  0  0  1  0  0  0  0
  31 0 0 1  0  1  3  1  3  2  0  0  0  0  0  0  0  0  0
  32 1 1 0  3  5  2  1  4  2  0  0  2  0  0  0  0  0  0
  33 0 0 1  1  5  1  1  2  2  1  0  1  0  0  0  1  0  0
  34 0 0 2  0  3  1  5  3  0  1  1  0  0  0  1  0  0  0
  35 0 0 1  1  3  2  2  2  1  0  0  0  2  0  0  0  0  0
  36 0 1 0  1  1  2  1  1  4  0  1  0  0  0  0  0  0  0
  37 0 1 2  4  1  4  3  1  0  2  0  0  0  0  0  0  0  0
  38 0 1 1  3  5  2  2  0  2  0  0  0  0  0  0  0  0  0
  39 0 1 0  1  3  1  2  1  0  0  0  0  1  0  0  1  0  0
  40 0 0 0  1  1  0  0  0  0  0  0  0  1  0  0  0  0  0
  41 0 0 1  0  0  1  0  0  0  1  0  0  0  0  0  0  0  0
  42 0 0 0  0  0  0  0  0  0  0  1  0  0  0  0  0  0  0
  43 0 0 0  0  0  0  0  0  0  0  0  0  0  0  0  0  0  1
  44 0 0 0  1  0  0  0  0  0  0  0  0  0  0  0  0  0  0
> (V1<-dimnames(y)[[1]][cat1])
[1] "Connected"
> (V2<-dimnames(y)[[1]][cat2])
[1] "Depression"
> postscript(file="/var/wessaorg/rcomp/tmp/1lzun1321548071.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/29gbx1321548071.tab") 
> (cst<-chisq.test(table1, simulate.p.value=simulate.p.value) )

	Pearson's Chi-squared test

data:  table1 
X-squared = 497.3317, df = 289, p-value = 3.022e-13

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$expected[nr, nc], digits=2), 1, FALSE)
+ }
+ a<-table.row.end(a)
+ }
+ a<-table.end(a)
+ table.save(a,file="/var/wessaorg/rcomp/tmp/3v9o51321548071.tab") 
+ }
> a<-table.start()
> a<-table.row.start(a)
> a<-table.element(a,'Statistical Results',2,TRUE)
> a<-table.row.end(a)
> a<-table.row.start(a)
> a<-table.element(a, cst$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/4wj881321548071.tab") 
> 
> try(system("convert tmp/1lzun1321548071.ps tmp/1lzun1321548071.png",intern=TRUE))
character(0)
> 
> 
> proc.time()
   user  system elapsed 
  3.234   0.107   3.357