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) R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > x <- array(list(4.8 + ,5 + ,4.4 + ,4.6 + ,4.8 + ,4.6 + ,5.4 + ,5.4 + ,4.2 + ,5.6 + ,4.2 + ,4 + ,6 + ,5.6 + ,5.2 + ,4 + ,4.6 + ,4.8 + ,6 + ,5.6 + ,5.2 + ,5 + ,4.8 + ,4 + ,4 + ,5.4 + ,4.4 + ,4.4 + ,4.6 + ,5 + ,6 + ,6 + ,5.5 + ,6 + ,6.2 + ,5 + ,4.2 + ,4 + ,4 + ,4 + ,4.4 + ,4 + ,4.2 + ,4.2 + ,4 + ,4.4 + ,4.2 + ,4 + ,4.2 + ,4.6 + ,4 + ,4.6 + ,4 + ,4.4 + ,4 + ,4.2 + ,3.8 + ,4 + ,4.2 + ,4 + ,4.6 + ,4.2 + ,4 + ,4.8 + ,4.4 + ,4 + ,5.6666666667 + ,4.6666666667 + ,5.25 + ,5.3333333333 + ,5.2 + ,5 + ,3.8 + ,3.6 + ,3.6 + ,4.4 + ,3.8 + ,3.8 + ,4.8 + ,5 + ,4.4 + ,5.2 + ,5.2 + ,4.6 + ,4.2 + ,4.6 + ,4 + ,5.2 + ,4.6 + ,4 + ,4 + ,4 + ,4.4 + ,4 + ,4.2 + ,4.6 + ,5.4 + ,5.8 + ,4.3333333333 + ,5.2 + ,5.4 + ,4.6666666667 + ,4.6 + ,5.8 + ,4.6 + ,4.8 + ,4.6 + ,4 + ,4 + ,4 + ,4 + ,4 + ,4.4 + ,4 + ,4.4 + ,5.4 + ,4.4 + ,4.4 + ,5 + ,4.4 + ,5 + ,4.8 + ,5 + ,5.6 + ,4.8 + ,4.8 + ,5.4 + ,5.8 + ,5.2 + ,6 + ,6.2 + ,5.8 + ,5.2 + ,5.4 + ,5.2 + ,4.8 + ,5.2 + ,4.6 + ,4.4 + ,4.8 + ,4.6 + ,4.2 + ,4.6 + ,4.75 + ,4 + ,4.6 + ,4.6 + ,4 + ,4.6 + ,5 + ,3.4 + ,4.6 + ,2.3333333333 + ,2.8 + ,4.2 + ,2.75 + ,4.4 + ,4 + ,4 + ,4.8 + ,4 + ,4 + ,4 + ,4 + ,3.8 + ,4.2 + ,4.6 + ,3.8 + ,4.4 + ,4.8 + ,4 + ,4.8 + ,4.6 + ,4.4 + ,4.4 + ,5 + ,4.6 + ,5.2 + ,5 + ,4.8 + ,4 + ,4 + ,4.75 + ,4.6 + ,4.6 + ,4.25 + ,4.8 + ,5.2 + ,4.4 + ,4.4 + ,5.6 + ,4.4 + ,4 + ,4 + ,4 + ,4 + ,4 + ,4 + ,4 + ,4.4 + ,4 + ,3.6 + ,3.8 + ,4.5 + ,5 + ,5.6 + ,5.2 + ,4.6 + ,5.8 + ,5 + ,4 + ,4.6 + ,3.8 + ,4 + ,4.2 + ,3.5 + ,3.4 + ,2.2 + ,2.5 + ,2.2 + ,3.4 + ,2 + ,4 + ,4 + ,3.2 + ,4 + ,3.8 + ,4.4 + ,5.4 + ,4.6 + ,4.2 + ,5.6 + ,4.8 + ,4.4 + ,4.2 + ,4.2 + ,4 + ,3.6 + ,4.2 + ,4.25 + ,4 + ,4 + ,3.25 + ,4 + ,4 + ,3.25 + ,5.6 + ,5 + ,4.2 + ,5.4 + ,5 + ,4.2 + ,4.8 + ,5 + ,4.75 + ,5 + ,5 + ,4.75 + ,4.4 + ,4.8 + ,4.4 + ,4.4 + ,4.6 + ,4.4 + ,4.6 + ,5 + ,4 + ,4.6 + ,5 + ,4 + ,4 + ,3.8 + ,4.2 + ,3.8 + ,3.8 + ,4.2 + ,5.2 + ,4.6 + ,4 + ,4.25 + ,5 + ,5 + ,4.8 + ,4.2 + ,4.2 + ,4.6 + ,4.8 + ,4.6 + ,4.6 + ,5 + ,4.4 + ,5.2 + ,5 + ,4.4 + ,4 + ,4 + ,4 + ,4 + ,4.2 + ,4 + ,4.2 + ,5.2 + ,4.6 + ,4.2 + ,4.8 + ,4.4 + ,4.6 + ,4.8 + ,4.4 + ,4.2 + ,4.6 + ,4.5 + ,4.4 + ,4.2 + ,4 + ,4.6 + ,5 + ,5.2 + ,5 + ,5 + ,4.8 + ,5.6 + ,5 + ,4.4 + ,5 + ,4.2 + ,2.25 + ,5.4 + ,4 + ,3.25 + ,4 + ,4 + ,4.8 + ,4 + ,4 + ,4.6 + ,3.8 + ,3.2 + ,3.75 + ,3.6 + ,3.2 + ,3.75 + ,5.2 + ,6.2 + ,5.6 + ,4.4 + ,5.2 + ,5 + ,4.2 + ,5.6 + ,4.2 + ,4.6 + ,4.6 + ,3.8 + ,4.4 + ,4.6 + ,4.2 + ,4.4 + ,3.6 + ,4 + ,4.2 + ,5.2 + ,5 + ,4 + ,4.8 + ,5.4 + ,6 + ,6 + ,5.8 + ,5 + ,4.8 + ,5 + ,4.8 + ,4.8 + ,5 + ,4.8 + ,4.8 + ,5 + ,4 + ,4 + ,4 + ,4 + ,4 + ,4.2 + ,4.4 + ,4.4 + ,4.4 + ,4.6 + ,5 + ,4.4 + ,4 + ,4.4 + ,4.4 + ,4 + ,4.4 + ,4 + ,4.8 + ,4.8 + ,4.4 + ,5 + ,5.2 + ,4.6 + ,4.8 + ,4.6 + ,4.4 + ,4.2 + ,4 + ,4.2 + ,5.6 + ,6.4 + ,5.8 + ,4.8 + ,5.6 + ,5.2 + ,6 + ,6 + ,6 + ,6.8 + ,7 + ,6.4 + ,4 + ,4.2 + ,4 + ,4 + ,4.2 + ,4 + ,4.2 + ,4 + ,4 + ,4.2 + ,4 + ,4 + ,5 + ,5.2 + ,5 + ,5 + ,5.2 + ,5 + ,4.4 + ,4.4 + ,4 + ,5 + ,4.2 + ,4 + ,4.2 + ,4.6 + ,4.2 + ,4.6 + ,4.6 + ,4.2 + ,4.6 + ,4.8 + ,4.4 + ,4.8 + ,4.8 + ,4 + ,4.4 + ,4.2 + ,4 + ,5 + ,4.8 + ,4 + ,4 + ,4 + ,4 + ,4.2 + ,4 + ,4 + ,4 + ,4.2 + ,4 + ,4 + ,4.4 + ,4 + ,4 + ,4 + ,4.2 + ,4 + ,4 + ,4 + ,4.2 + ,5 + ,4.6 + ,3.8 + ,4.6 + ,4.2 + ,4 + ,4 + ,4.4 + ,4.6 + ,4.2 + ,4 + ,5 + ,5.6 + ,4.4 + ,4 + ,4 + ,4 + ,4.2 + ,4 + ,4 + ,4.2 + ,3.8 + ,4 + ,5.4 + ,5.8 + ,5 + ,5.6 + ,6 + ,5.2 + ,4 + ,4.4 + ,4.2 + ,4 + ,5 + ,4.2 + ,6 + ,5.4 + ,5 + ,5.6 + ,5.4 + ,4.8 + ,3.8 + ,4.2 + ,4 + ,3.8 + ,4.2 + ,4 + ,5 + ,5.2 + ,4.8 + ,5 + ,5.4 + ,4.8 + ,4.4 + ,4.6 + ,4 + ,5.4 + ,5.6 + ,5 + ,5 + ,5.2 + ,4.6 + ,5 + ,5.2 + ,4.6 + ,4.4 + ,4.4 + ,4 + ,4.4 + ,4.4 + ,4 + ,5 + ,4.2 + ,4.4 + ,4.4 + ,4.4 + ,4.4 + ,4.2 + ,4 + ,4 + ,4 + ,4.2 + ,4 + ,4.6 + ,3.8 + ,3.4 + ,5.4 + ,4 + ,3.8 + ,5 + ,5.6 + ,5.8 + ,2.2 + ,4.2 + ,4.5) + ,dim=c(6 + ,96) + ,dimnames=list(c('cmemomean' + ,'cpattmean' + ,'cappmean' + ,'smemmean' + ,'sattmean' + ,'sappmean') + ,1:96)) > y <- array(NA,dim=c(6,96),dimnames=list(c('cmemomean','cpattmean','cappmean','smemmean','sattmean','sappmean'),1:96)) > for (i in 1:dim(x)[1]) + { + for (j in 1:dim(x)[2]) + { + y[i,j] <- as.numeric(x[i,j]) + } + } > par3 = '0' > par2 = 'FALSE' > par1 = '3' > ylab = 'Test Scores' > xlab = 'Variable Names' > main = 'Pregnancy and Cognition ' > par1 <- as.numeric(par1) #colour > par2<- as.logical(par2) # Notches ? > par3<-as.numeric(par3) # % trim > if(par3>45){par3<-45;warning('trim limited to 45%')} > if(par3<0){par3<-0;warning('negative trim makes no sense. Trim is zero.')} > lotrm<-as.integer(length(y[1,])*par3/100)+1 > hitrm<-as.integer(length(y[1,])*(100-par3)/100) > y1<-array(dim=c(dim(y)[1], hitrm-lotrm+1), dimnames=list(dimnames(y)[[1]], 1:(hitrm-lotrm+1) )) > for(i in 1:dim(y)[1]){ + tmp<-order(y[i,]) + y1[i,]<- y[i, tmp[lotrm:hitrm] ] + } > postscript(file="/var/wessaorg/rcomp/tmp/1kjdd1320159599.ps",horizontal=F,onefile=F,pagecentre=F,paper="special",width=8.3333333333333,height=5.5555555555556) > pairs(t(y)) > dev.off() null device 1 > y<-y1 > z <- as.data.frame(t(y)) > postscript(file="/var/wessaorg/rcomp/tmp/2ago21320159599.ps",horizontal=F,onefile=F,pagecentre=F,paper="special",width=8.3333333333333,height=5.5555555555556) > (r<-boxplot(z ,xlab=xlab,ylab=ylab,main=main,notch=par2,col=par1)) $stats [,1] [,2] [,3] [,4] [,5] [,6] [1,] 3.4 3.2 3.200000 2.8 3.2 3.250000 [2,] 4.0 4.2 4.000000 4.0 4.2 4.000000 [3,] 4.4 4.6 4.266667 4.4 4.6 4.325000 [4,] 5.0 5.2 4.600000 5.0 5.0 4.708333 [5,] 6.0 6.4 5.250000 6.0 6.0 5.400000 $n [1] 96 96 96 96 96 96 $conf [,1] [,2] [,3] [,4] [,5] [,6] [1,] 4.238742 4.438742 4.169912 4.238742 4.470994 4.210776 [2,] 4.561258 4.761258 4.363422 4.561258 4.729006 4.439224 $out [1] 2.200000 2.250000 2.333333 2.500000 5.500000 5.600000 5.800000 5.800000 [9] 5.800000 6.000000 2.200000 2.200000 6.800000 6.200000 6.200000 7.000000 [17] 2.000000 2.750000 5.800000 6.400000 $group [1] 2 3 3 3 3 3 3 3 3 3 4 4 4 5 5 5 6 6 6 6 $names [1] "cmemomean" "cpattmean" "cappmean" "smemmean" "sattmean" "sappmean" > dev.off() null device 1 > > #Note: the /var/wessaorg/rcomp/createtable file can be downloaded at http://www.wessa.net/cretab > load(file="/var/wessaorg/rcomp/createtable") > > a<-table.start() > a<-table.row.start(a) > a<-table.element(a,hyperlink('http://www.xycoon.com/overview.htm','Boxplot statistics','Boxplot overview'),6,TRUE) > a<-table.row.end(a) > a<-table.row.start(a) > a<-table.element(a,'Variable',1,TRUE) > a<-table.element(a,hyperlink('http://www.xycoon.com/lower_whisker.htm','lower whisker','definition of lower whisker'),1,TRUE) > a<-table.element(a,hyperlink('http://www.xycoon.com/lower_hinge.htm','lower hinge','definition of lower hinge'),1,TRUE) > a<-table.element(a,hyperlink('http://www.xycoon.com/central_tendency.htm','median','definitions about measures of central tendency'),1,TRUE) > a<-table.element(a,hyperlink('http://www.xycoon.com/upper_hinge.htm','upper hinge','definition of upper hinge'),1,TRUE) > a<-table.element(a,hyperlink('http://www.xycoon.com/upper_whisker.htm','upper whisker','definition of upper whisker'),1,TRUE) > a<-table.row.end(a) > for (i in 1:length(y[,1])) + { + a<-table.row.start(a) + a<-table.element(a,dimnames(t(x))[[2]][i],1,TRUE) + for (j in 1:5) + { + a<-table.element(a,round(r$stats[j,i], digits=2)) + } + a<-table.row.end(a) + } > a<-table.end(a) > table.save(a,file="/var/wessaorg/rcomp/tmp/3q2xs1320159599.tab") > if (par2){ + a<-table.start() + a<-table.row.start(a) + a<-table.element(a,'Boxplot Notches',4,TRUE) + a<-table.row.end(a) + a<-table.row.start(a) + a<-table.element(a,'Variable',1,TRUE) + a<-table.element(a,'lower bound',1,TRUE) + a<-table.element(a,'median',1,TRUE) + a<-table.element(a,'upper bound',1,TRUE) + a<-table.row.end(a) + for (i in 1:length(y[,1])) + { + a<-table.row.start(a) + a<-table.element(a,dimnames(t(x))[[2]][i],1,TRUE) + a<-table.element(a,round(r$conf[1,i], digits=2)) + a<-table.element(a, round(r$stats[3,i], digits=2)) + a<-table.element(a,round(r$conf[2,i], digits=2)) + a<-table.row.end(a) + } + a<-table.end(a) + table.save(a,file="/var/wessaorg/rcomp/tmp/42v3q1320159599.tab") + } > a<-table.start() > a<-table.row.start(a) > a<-table.element(a,'Boxplot Means',4,TRUE) > a<-table.row.end(a) > a<-table.row.start(a) > a<-table.element(a,'Variable',1,TRUE) > a<-table.element(a,hyperlink('http://www.xycoon.com/trimmed_mean.htm','trimmed mean','definition of trimmed mean'),1,TRUE) > a<-table.element(a,hyperlink('http://www.xycoon.com/unbiased1.htm','unbiased SD','definition of unbiased SD'),1,TRUE) > a<-table.row.end(a) > for (i in 1:length(y[,1])) + { + a<-table.row.start(a) + a<-table.element(a,dimnames(t(x))[[2]][i],1,TRUE) + a<-table.element(a,round(mean(z[i], trim=par3/100, na.rm=TRUE), digits=2)) + a<-table.element(a,round(sd(z[i], na.rm=TRUE), digits=2)) + a<-table.row.end(a) + } > a<-table.end(a) > table.save(a,file="/var/wessaorg/rcomp/tmp/5fytd1320159599.tab") > > try(system("convert tmp/1kjdd1320159599.ps tmp/1kjdd1320159599.png",intern=TRUE)) character(0) > try(system("convert tmp/2ago21320159599.ps tmp/2ago21320159599.png",intern=TRUE)) character(0) > > > proc.time() user system elapsed 1.064 0.106 1.186