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Bert Moons Hierarchical Clustering

*The author of this computation has been verified*
R Software Module: rwasp_hierarchicalclustering.wasp (opens new window with default values)
Title produced by software: Hierarchical Clustering
Date of computation: Mon, 10 Nov 2008 04:46:15 -0700
 
Cite this page as follows:
Statistical Computations at FreeStatistics.org, Office for Research Development and Education, URL http://www.freestatistics.org/blog/date/2008/Nov/10/t1226317617jwccu23pfd9w4zq.htm/, Retrieved Mon, 10 Nov 2008 11:47:00 +0000
 
BibTeX entries for LaTeX users:
@Manual{KEY,
    author = {{YOUR NAME}},
    publisher = {Office for Research Development and Education},
    title = {Statistical Computations at FreeStatistics.org, URL http://www.freestatistics.org/blog/date/2008/Nov/10/t1226317617jwccu23pfd9w4zq.htm/},
    year = {2008},
}
@Manual{R,
    title = {R: A Language and Environment for Statistical Computing},
    author = {{R Development Core Team}},
    organization = {R Foundation for Statistical Computing},
    address = {Vienna, Austria},
    year = {2008},
    note = {{ISBN} 3-900051-07-0},
    url = {http://www.R-project.org},
}
 
Family? (F = Feedback message, R = changed R code, M = changed R Module, P = changed Parameters, D = changed Data)
 
Feedback Forum:

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Original text written by user:
 
IsPrivate?
No (this computation is public)
 
User-defined keywords:
Bert Moons, Hierarchical Clustering
 
Dataseries X:
» Textbox « » Textfile « » CSV «
4.8 19.2 3 5.5 26.6 3.5 5.4 26.6 3.9 5.9 31.4 4.4 5.8 31.2 3.5 5.1 26.4 4.7 4.1 20.7 1.6 4.4 20.7 2.3 3.6 15 1.2 3.5 13.3 1.4 3.1 8.7 2.7 2.9 10.2 1.5 2.2 4.3 2.1 1.4 -0.1 0.5 1.2 -4.6 1.7 1.3 -3.9 3.6 1.3 -3.5 3.2 1.3 -3.4 1.7 1.8 -2.5 5.6 1.8 -1.1 3.7 1.8 0.3 4.3 1.7 -0.9 5.9 2.1 3.6 4.8 2 2.7 6 1.7 -0.2 5.6 1.9 -1 6.7 2.3 5.8 3.3 2.4 6.4 3 2.5 9.6 1.6 2.8 13.2 1.7 2.6 10.6 1.1 2.2 10.9 -0.3 2.8 12.9 3 2.8 15.9 2.7 2.8 12.2 1.8 2.3 9.1 1.5 2.2 9 1 3 17.4 0.5 2.9 14.7 2.8 2.7 17 1.4 2.7 13.7 1.7 2.3 9.5 2.6 2.4 14.8 1.9 2.8 13.6 3.9 2.3 12.6 1.5 2 8.9 -0.5 1.9 10.2 1.9 2.3 12.7 1 2.7 16 0.1 1.8 10.4 -3.1 2 9.9 -0.8 2.1 9.5 0.7 2 8.6 1.4 2.4 10 2.8 1.7 3.5 1.9 1 -4.2 1.1 1.2 -4.4 1.4 1.4 -1.5 2.9 1.7 -0.1 2.9 1.8 0.8 2.9
 
Output produced by software:

Enter (or paste) a matrix (table) containing all data (time) series. Every column represents a different variable and must be delimited by a space or Tab. Every row represents a period in time (or category) and must be delimited by hard returns. The easiest way to enter data is to copy and paste a block of spreadsheet cells. Please, do not use commas or spaces to seperate groups of digits!


Summary of computational transaction
Raw Inputview raw input (R code)
Raw Outputview raw output of R engine
Computing time2 seconds
R Server'George Udny Yule' @ 72.249.76.132


Summary of Dendrogram
LabelHeight
10.360555127546399
20.412310562561766
30.412310562561766
40.509901951359278
50.509901951359278
60.519615242270663
70.547722557505166
80.547722557505166
90.565685424949238
100.591607978309962
110.591607978309962
120.640312423743285
130.678232998312527
140.707106781186548
150.728010988928051
160.761577310586391
170.761577310586391
180.768114574786861
190.806225774829855
200.830662386291807
210.877496438739213
220.9
230.905538513813742
240.92736184954957
250.964365076099295
260.979795897113272
271.02469507659596
281.0295630140987
291.03440804327886
301.04403065089106
311.04403065089106
321.13578166916005
331.13578166916006
341.14017542509914
351.15758369027902
361.20830459735946
371.28452325786651
381.33416640641263
391.34536240470737
401.39642400437689
411.40356688476182
421.45945195193264
431.48660687473185
441.50332963783729
451.50332963783729
461.63095064303001
471.70293863659264
481.70587221092320
491.75783958312469
501.92353840616713
512.02484567313166
522.36220236220354
532.41867732448956
542.42280828791714
552.67020598456374
562.88097205817759
573.43656805548792
584.60977222864644
596.12045749923974
 
Charts produced by software:
http://127.0.0.1/wessadotnet/public_html/freestatisticsdotorg/blog/date/2008/Nov/10/t1226317617jwccu23pfd9w4zq/11ik31226317573.png (open in new window)
http://127.0.0.1/wessadotnet/public_html/freestatisticsdotorg/blog/date/2008/Nov/10/t1226317617jwccu23pfd9w4zq/11ik31226317573.ps (open in new window)


http://127.0.0.1/wessadotnet/public_html/freestatisticsdotorg/blog/date/2008/Nov/10/t1226317617jwccu23pfd9w4zq/24ex61226317573.png (open in new window)
http://127.0.0.1/wessadotnet/public_html/freestatisticsdotorg/blog/date/2008/Nov/10/t1226317617jwccu23pfd9w4zq/24ex61226317573.ps (open in new window)


 
Parameters (Session):
par1 = single ; par2 = ALL ; par3 = FALSE ; par4 = FALSE ;
 
Parameters (R input):
par1 = single ; par2 = ALL ; par3 = FALSE ; par4 = FALSE ;
 
R code (references can be found in the software module):
par3 <- as.logical(par3)
par4 <- as.logical(par4)
if (par3 == 'TRUE'){
dum = xlab
xlab = ylab
ylab = dum
}
x <- t(y)
hc <- hclust(dist(x),method=par1)
d <- as.dendrogram(hc)
str(d)
mysub <- paste('Method: ',par1)
bitmap(file='test1.png')
if (par4 == 'TRUE'){
plot(d,main=main,ylab=ylab,xlab=xlab,horiz=par3, nodePar=list(pch = c(1,NA), cex=0.8, lab.cex = 0.8),type='t',center=T, sub=mysub)
} else {
plot(d,main=main,ylab=ylab,xlab=xlab,horiz=par3, nodePar=list(pch = c(1,NA), cex=0.8, lab.cex = 0.8), sub=mysub)
}
dev.off()
if (par2 != 'ALL'){
if (par3 == 'TRUE'){
ylab = 'cluster'
} else {
xlab = 'cluster'
}
par2 <- as.numeric(par2)
memb <- cutree(hc, k = par2)
cent <- NULL
for(k in 1:par2){
cent <- rbind(cent, colMeans(x[memb == k, , drop = FALSE]))
}
hc1 <- hclust(dist(cent),method=par1, members = table(memb))
de <- as.dendrogram(hc1)
bitmap(file='test2.png')
if (par4 == 'TRUE'){
plot(de,main=main,ylab=ylab,xlab=xlab,horiz=par3, nodePar=list(pch = c(1,NA), cex=0.8, lab.cex = 0.8),type='t',center=T, sub=mysub)
} else {
plot(de,main=main,ylab=ylab,xlab=xlab,horiz=par3, nodePar=list(pch = c(1,NA), cex=0.8, lab.cex = 0.8), sub=mysub)
}
dev.off()
str(de)
}
load(file='createtable')
a<-table.start()
a<-table.row.start(a)
a<-table.element(a,'Summary of Dendrogram',2,TRUE)
a<-table.row.end(a)
a<-table.row.start(a)
a<-table.element(a,'Label',header=TRUE)
a<-table.element(a,'Height',header=TRUE)
a<-table.row.end(a)
num <- length(x[,1])-1
for (i in 1:num)
{
a<-table.row.start(a)
a<-table.element(a,hc$labels[i])
a<-table.element(a,hc$height[i])
a<-table.row.end(a)
}
a<-table.end(a)
table.save(a,file='mytable1.tab')
if (par2 != 'ALL'){
a<-table.start()
a<-table.row.start(a)
a<-table.element(a,'Summary of Cut Dendrogram',2,TRUE)
a<-table.row.end(a)
a<-table.row.start(a)
a<-table.element(a,'Label',header=TRUE)
a<-table.element(a,'Height',header=TRUE)
a<-table.row.end(a)
num <- par2-1
for (i in 1:num)
{
a<-table.row.start(a)
a<-table.element(a,i)
a<-table.element(a,hc1$height[i])
a<-table.row.end(a)
}
a<-table.end(a)
table.save(a,file='mytable2.tab')
}
 




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