R version 2.12.1 (2010-12-16)
Copyright (C) 2010 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(83,96,79,91,92,108,83,95,92,105,103,117,82,94,86,98,106,120,79,91,86,100,76,90,108,123,82,97,108,120,118,133,127,141,123,138,72,85,105,121,63,74,86,100,58,67,59,73,100,116,100,115,78,92,94,109,105,120,89,105,101,115,92,105,105,122,76,87,80,94,66,78,117,135,94,113,107,123,110,126,110,127,106,120,94,108,71,83,101,117,84,96,89,103,119,134,97,112,82,93,89,103,70,84,101,116,81,97,74,87,107,122,97,111,83,101,95,109,82,96,88,100,74,90,104,120,73,86,73,85,81,96,79,93,83,95,111,127,138,156,81,94,107,123,66,80,81,98,74,88,96,109,86,98,69,83,73,85,71,85,64,76,79,96,60,72,111,125,107,121,90,103,98,113,77,89,93,108,68,80,74,87,70,84,80,93,81,94,72,87,81,95,92,106,81,94),dim=c(2,98),dimnames=list(c('Gewicht','Cholesterol'),1:98))
> y <- array(NA,dim=c(2,98),dimnames=list(c('Gewicht','Cholesterol'),1:98))
> for (i in 1:dim(x)[1])
+ {
+ for (j in 1:dim(x)[2])
+ {
+ y[i,j] <- as.numeric(x[i,j])
+ }
+ }
> par6 = '0.0'
> par5 = 'paired'
> par4 = 'two.sided'
> par3 = '0.95'
> par2 = '2'
> par1 = '1'
> main = 'Two Samples'
> #'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:
> par1 <- as.numeric(par1) #column number of first sample
> par2 <- as.numeric(par2) #column number of second sample
> par3 <- as.numeric(par3) #confidence (= 1 - alpha)
> if (par5 == 'unpaired') paired <- FALSE else paired <- TRUE
> par6 <- as.numeric(par6) #H0
> z <- t(y)
> if (par1 == par2) stop('Please, select two different column numbers')
> if (par1 < 1) stop('Please, select a column number greater than zero for the first sample')
> if (par2 < 1) stop('Please, select a column number greater than zero for the second sample')
> if (par1 > length(z[1,])) stop('The column number for the first sample should be smaller')
> if (par2 > length(z[1,])) stop('The column number for the second sample should be smaller')
> if (par3 <= 0) stop('The confidence level should be larger than zero')
> if (par3 >= 1) stop('The confidence level should be smaller than zero')
> (r.t <- t.test(z[,par1],z[,par2],var.equal=TRUE,alternative=par4,paired=paired,mu=par6,conf.level=par3))
Paired t-test
data: z[, par1] and z[, par2]
t = -77.9663, df = 97, p-value < 2.2e-16
alternative hypothesis: true difference in means is not equal to 0
95 percent confidence interval:
-14.40871 -13.69334
sample estimates:
mean of the differences
-14.05102
> (v.t <- var.test(z[,par1],z[,par2],conf.level=par3))
F test to compare two variances
data: z[, par1] and z[, par2]
F = 0.8849, num df = 97, denom df = 97, p-value = 0.5483
alternative hypothesis: true ratio of variances is not equal to 1
95 percent confidence interval:
0.5929705 1.3206228
sample estimates:
ratio of variances
0.884924
> (r.w <- t.test(z[,par1],z[,par2],var.equal=FALSE,alternative=par4,paired=paired,mu=par6,conf.level=par3))
Paired t-test
data: z[, par1] and z[, par2]
t = -77.9663, df = 97, p-value < 2.2e-16
alternative hypothesis: true difference in means is not equal to 0
95 percent confidence interval:
-14.40871 -13.69334
sample estimates:
mean of the differences
-14.05102
> (w.t <- wilcox.test(z[,par1],z[,par2],alternative=par4,paired=paired,mu=par6,conf.level=par3))
Wilcoxon signed rank test with continuity correction
data: z[, par1] and z[, par2]
V = 0, p-value < 2.2e-16
alternative hypothesis: true location shift is not equal to 0
> (ks.t <- ks.test(z[,par1],z[,par2],alternative=par4))
Two-sample Kolmogorov-Smirnov test
data: z[, par1] and z[, par2]
D = 0.3776, p-value = 1.715e-06
alternative hypothesis: two-sided
Warning message:
In ks.test(z[, par1], z[, par2], alternative = par4) :
cannot compute correct p-values with ties
> m1 <- mean(z[,par1],na.rm=T)
> m2 <- mean(z[,par2],na.rm=T)
> mdiff <- m1 - m2
> newsam1 <- z[!is.na(z[,par1]),par1]
> newsam2 <- z[,par2]+mdiff
> newsam2 <- newsam2[!is.na(newsam2)]
> (ks1.t <- ks.test(newsam1,newsam2,alternative=par4))
Two-sample Kolmogorov-Smirnov test
data: newsam1 and newsam2
D = 0.0714, p-value = 0.964
alternative hypothesis: two-sided
Warning message:
In ks.test(newsam1, newsam2, alternative = par4) :
cannot compute correct p-values with ties
> mydf <- data.frame(cbind(z[,par1],z[,par2]))
> colnames(mydf) <- c('Variable 1','Variable 2')
> postscript(file="/var/www/rcomp/tmp/18p4z1324030031.ps",horizontal=F,onefile=F,pagecentre=F,paper="special",width=8.3333333333333,height=5.5555555555556)
> boxplot(mydf, notch=TRUE, ylab='value',main=main)
> dev.off()
null device
1
> postscript(file="/var/www/rcomp/tmp/2xes91324030031.ps",horizontal=F,onefile=F,pagecentre=F,paper="special",width=8.3333333333333,height=5.5555555555556)
> qqnorm(z[,par1],main='Normal QQplot - Variable 1')
> qqline(z[,par1])
> dev.off()
null device
1
> postscript(file="/var/www/rcomp/tmp/3uowd1324030031.ps",horizontal=F,onefile=F,pagecentre=F,paper="special",width=8.3333333333333,height=5.5555555555556)
> qqnorm(z[,par2],main='Normal QQplot - Variable 2')
> qqline(z[,par2])
> dev.off()
null device
1
>
> #Note: the /var/www/rcomp/createtable file can be downloaded at http://www.wessa.net/cretab
> load(file="/var/www/rcomp/createtable")
>
> a<-table.start()
> a<-table.row.start(a)
> a<-table.element(a,paste('Two Sample t-test (',par5,')',sep=''),2,TRUE)
> a<-table.row.end(a)
> if(!paired){
+ a<-table.row.start(a)
+ a<-table.element(a,'Mean of Sample 1',header=TRUE)
+ a<-table.element(a,r.t$estimate[[1]])
+ a<-table.row.end(a)
+ a<-table.row.start(a)
+ a<-table.element(a,'Mean of Sample 2',header=TRUE)
+ a<-table.element(a,r.t$estimate[[2]])
+ a<-table.row.end(a)
+ } else {
+ a<-table.row.start(a)
+ a<-table.element(a,'Difference: Mean1 - Mean2',header=TRUE)
+ a<-table.element(a,r.t$estimate)
+ a<-table.row.end(a)
+ }
> a<-table.row.start(a)
> a<-table.element(a,'t-stat',header=TRUE)
> a<-table.element(a,r.t$statistic[[1]])
> a<-table.row.end(a)
> a<-table.row.start(a)
> a<-table.element(a,'df',header=TRUE)
> a<-table.element(a,r.t$parameter[[1]])
> a<-table.row.end(a)
> a<-table.row.start(a)
> a<-table.element(a,'p-value',header=TRUE)
> a<-table.element(a,r.t$p.value)
> a<-table.row.end(a)
> a<-table.row.start(a)
> a<-table.element(a,'H0 value',header=TRUE)
> a<-table.element(a,r.t$null.value[[1]])
> a<-table.row.end(a)
> a<-table.row.start(a)
> a<-table.element(a,'Alternative',header=TRUE)
> a<-table.element(a,r.t$alternative)
> a<-table.row.end(a)
> a<-table.row.start(a)
> a<-table.element(a,'CI Level',header=TRUE)
> a<-table.element(a,attr(r.t$conf.int,'conf.level'))
> a<-table.row.end(a)
> a<-table.row.start(a)
> a<-table.element(a,'CI',header=TRUE)
> a<-table.element(a,paste('[',r.t$conf.int[1],',',r.t$conf.int[2],']',sep=''))
> a<-table.row.end(a)
> a<-table.row.start(a)
> a<-table.element(a,'F-test to compare two variances',2,TRUE)
> a<-table.row.end(a)
> a<-table.row.start(a)
> a<-table.element(a,'F-stat',header=TRUE)
> a<-table.element(a,v.t$statistic[[1]])
> a<-table.row.end(a)
> a<-table.row.start(a)
> a<-table.element(a,'df',header=TRUE)
> a<-table.element(a,v.t$parameter[[1]])
> a<-table.row.end(a)
> a<-table.row.start(a)
> a<-table.element(a,'p-value',header=TRUE)
> a<-table.element(a,v.t$p.value)
> a<-table.row.end(a)
> a<-table.row.start(a)
> a<-table.element(a,'H0 value',header=TRUE)
> a<-table.element(a,v.t$null.value[[1]])
> a<-table.row.end(a)
> a<-table.row.start(a)
> a<-table.element(a,'Alternative',header=TRUE)
> a<-table.element(a,v.t$alternative)
> a<-table.row.end(a)
> a<-table.row.start(a)
> a<-table.element(a,'CI Level',header=TRUE)
> a<-table.element(a,attr(v.t$conf.int,'conf.level'))
> a<-table.row.end(a)
> a<-table.row.start(a)
> a<-table.element(a,'CI',header=TRUE)
> a<-table.element(a,paste('[',v.t$conf.int[1],',',v.t$conf.int[2],']',sep=''))
> a<-table.row.end(a)
> a<-table.end(a)
> table.save(a,file="/var/www/rcomp/tmp/4kw9t1324030031.tab")
> a<-table.start()
> a<-table.row.start(a)
> a<-table.element(a,paste('Welch Two Sample t-test (',par5,')',sep=''),2,TRUE)
> a<-table.row.end(a)
> if(!paired){
+ a<-table.row.start(a)
+ a<-table.element(a,'Mean of Sample 1',header=TRUE)
+ a<-table.element(a,r.w$estimate[[1]])
+ a<-table.row.end(a)
+ a<-table.row.start(a)
+ a<-table.element(a,'Mean of Sample 2',header=TRUE)
+ a<-table.element(a,r.w$estimate[[2]])
+ a<-table.row.end(a)
+ } else {
+ a<-table.row.start(a)
+ a<-table.element(a,'Difference: Mean1 - Mean2',header=TRUE)
+ a<-table.element(a,r.w$estimate)
+ a<-table.row.end(a)
+ }
> a<-table.row.start(a)
> a<-table.element(a,'t-stat',header=TRUE)
> a<-table.element(a,r.w$statistic[[1]])
> a<-table.row.end(a)
> a<-table.row.start(a)
> a<-table.element(a,'df',header=TRUE)
> a<-table.element(a,r.w$parameter[[1]])
> a<-table.row.end(a)
> a<-table.row.start(a)
> a<-table.element(a,'p-value',header=TRUE)
> a<-table.element(a,r.w$p.value)
> a<-table.row.end(a)
> a<-table.row.start(a)
> a<-table.element(a,'H0 value',header=TRUE)
> a<-table.element(a,r.w$null.value[[1]])
> a<-table.row.end(a)
> a<-table.row.start(a)
> a<-table.element(a,'Alternative',header=TRUE)
> a<-table.element(a,r.w$alternative)
> a<-table.row.end(a)
> a<-table.row.start(a)
> a<-table.element(a,'CI Level',header=TRUE)
> a<-table.element(a,attr(r.w$conf.int,'conf.level'))
> a<-table.row.end(a)
> a<-table.row.start(a)
> a<-table.element(a,'CI',header=TRUE)
> a<-table.element(a,paste('[',r.w$conf.int[1],',',r.w$conf.int[2],']',sep=''))
> a<-table.row.end(a)
> a<-table.end(a)
> table.save(a,file="/var/www/rcomp/tmp/50zqy1324030032.tab")
> a<-table.start()
> a<-table.row.start(a)
> a<-table.element(a,paste('Wicoxon rank sum test with continuity correction (',par5,')',sep=''),2,TRUE)
> a<-table.row.end(a)
> a<-table.row.start(a)
> a<-table.element(a,'W',header=TRUE)
> a<-table.element(a,w.t$statistic[[1]])
> a<-table.row.end(a)
> a<-table.row.start(a)
> a<-table.element(a,'p-value',header=TRUE)
> a<-table.element(a,w.t$p.value)
> a<-table.row.end(a)
> a<-table.row.start(a)
> a<-table.element(a,'H0 value',header=TRUE)
> a<-table.element(a,w.t$null.value[[1]])
> a<-table.row.end(a)
> a<-table.row.start(a)
> a<-table.element(a,'Alternative',header=TRUE)
> a<-table.element(a,w.t$alternative)
> a<-table.row.end(a)
> a<-table.row.start(a)
> a<-table.element(a,'Kolmogorov-Smirnov Test to compare Distributions of two Samples',2,TRUE)
> a<-table.row.end(a)
> a<-table.row.start(a)
> a<-table.element(a,'KS Statistic',header=TRUE)
> a<-table.element(a,ks.t$statistic[[1]])
> a<-table.row.end(a)
> a<-table.row.start(a)
> a<-table.element(a,'p-value',header=TRUE)
> a<-table.element(a,ks.t$p.value)
> a<-table.row.end(a)
> a<-table.row.start(a)
> a<-table.element(a,'Kolmogorov-Smirnov Test to compare Distributional Shape of two Samples',2,TRUE)
> a<-table.row.end(a)
> a<-table.row.start(a)
> a<-table.element(a,'KS Statistic',header=TRUE)
> a<-table.element(a,ks1.t$statistic[[1]])
> a<-table.row.end(a)
> a<-table.row.start(a)
> a<-table.element(a,'p-value',header=TRUE)
> a<-table.element(a,ks1.t$p.value)
> a<-table.row.end(a)
> a<-table.end(a)
> table.save(a,file="/var/www/rcomp/tmp/63v4x1324030032.tab")
>
> try(system("convert tmp/18p4z1324030031.ps tmp/18p4z1324030031.png",intern=TRUE))
character(0)
> try(system("convert tmp/2xes91324030031.ps tmp/2xes91324030031.png",intern=TRUE))
character(0)
> try(system("convert tmp/3uowd1324030031.ps tmp/3uowd1324030031.png",intern=TRUE))
character(0)
>
>
> proc.time()
user system elapsed
1.000 0.212 1.233