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Dendrogram

*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: Wed, 12 Nov 2008 03:45:17 -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/12/t1226487039sqzw99tdetikwzu.htm/, Retrieved Wed, 12 Nov 2008 10:50:42 +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/12/t1226487039sqzw99tdetikwzu.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)
 
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Original text written by user:
 
IsPrivate?
No (this computation is public)
 
User-defined keywords:
Laura_Reussens K_Vanderheggen hundrasmet
 
Dataseries X:
» Textbox « » Textfile « » CSV «
5,8 4,7 7,3 5,8 4,8 7,2 5,7 4,7 7,0 5,5 4,6 6,7 5,3 4,5 6,4 5,2 4,5 6,1 5,3 4,8 6,1 5,3 4,8 5,9 5,0 4,6 5,6 4,8 4,3 5,5 4,9 4,3 5,7 5,3 4,6 6,1 6,0 5,4 6,8 6,2 5,5 7,1 6,4 5,5 7,5 6,4 5,3 7,8 6,4 5,2 7,9 6,2 5,2 7,6 6,1 5,4 7,0 6,0 5,3 6,9 5,9 5,0 7,1 6,2 4,9 7,9 6,2 4,9 8,0 6,4 5,3 7,9 6,8 6,3 7,4 6,9 6,7 7,2 7,0 6,7 7,3 7,0 6,4 7,7 6,9 6,1 7,8 6,7 6,0 7,6 6,6 6,2 7,3 6,5 6,1 7,0 6,4 6,0 6,9 6,5 6,0 7,2 6,5 5,9 7,3 6,6 5,9 7,5 6,7 6,0 7,5 6,8 6,1 7,7 7,2 6,4 8,2 7,6 6,7 8,8 7,6 6,7 8,7 7,3 6,5 8,3 6,4 5,9 7,1 6,1 5,6 6,8 6,3 5,7 7,2 7,1 6,0 8,5 7,5 6,3 9,1 7,4 6,3 8,9 7,1 6,2 8,2 6,8 6,1 7,6 6,9 6,3 7,7 7,2 6,5 8,1 7,4 6,6 8,3 7,3 6,5 8,3 6,9 6,2 7,9 6,9 6,2 7,8 6,8 5,9 8,0 7,1 6,1 8,5 7,2 6,1 8,6 7,1 6,1 8,5 7,0 6,1 8,1 6,9 6,1 7,8 7,0 6,3 7,9 7,4 6,7 8,2 7,5 6,9 8,3 7,5 6,9 8,2 7,4 6,9 8,1 7,3 6,8 8,0 7,0 6,4 7,8 6,7 5,9 7,8 6,5 5,5 7,7 6,5 5,6 7,7 6,5 5,6 7,6 6,6 5,8 7,6 6,8 5,9 7,8 6,9 6,1 8,0 6,9 6,1 8,0 6,8 6,0 7,9 6,8 6,0 7,7 6,5 5,8 7,4 6,1 5,5 6,9 6,0 5,5 6,7 5,9 5,4 6,5 5,8 5,2 6,4 5,9 5,2 6,6 5,9 5,2 6,8 6,2 5,5 7,0 6,3 5,7 6,9 6,2 5,7 6,7 6,0 5,6 6,4 5,8 5,4 6,2 5,5 5,1 5,9 5,5 5,1 6,0 5,7 5,3 6,3 5,8 5,3 6,3 5,7 5,3 6,1
 
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'Gwilym Jenkins' @ 72.249.127.135


Summary of Dendrogram
LabelHeight
10
20
30
40
50.0999999999999996
60.0999999999999996
70.0999999999999996
80.0999999999999996
90.0999999999999996
100.0999999999999996
110.0999999999999996
120.0999999999999996
130.0999999999999996
140.0999999999999996
150.100000000000001
160.100000000000001
170.100000000000001
180.127614237491540
190.127614237491540
200.127614237491540
210.133333333333333
220.141421356237309
230.141421356237309
240.141421356237309
250.141421356237309
260.141421356237309
270.141421356237309
280.141421356237309
290.141421356237309
300.141421356237310
310.141421356237311
320.173205080756887
330.173205080756888
340.173205080756888
350.173205080756888
360.173205080756888
370.173205080756888
380.176417624662798
390.176417624662798
400.176417624662798
410.194690563282420
420.199999999999999
430.217400800258807
440.217400800258808
450.219116617372088
460.223606797749978
470.223606797749979
480.223606797749979
490.244948974278318
500.248405939253434
510.254635487766569
520.263976867019707
530.278529214547384
540.288077763410060
550.315659652396973
560.326605272182482
570.326977374784334
580.332453454251626
590.354818815858864
600.363046511788329
610.374165738677394
620.379540543061143
630.382994405953897
640.394268763265940
650.396016545891963
660.415907430465771
670.438085054483745
680.460456873739012
690.546674404290905
700.550239515055306
710.628572419255866
720.635412214679748
730.726260767215855
740.779993368702597
750.854453468157661
760.87484683558431
770.923396149891225
780.98556538400447
791.03431871418516
801.17238255285986
811.25474656459832
821.40345345570141
831.7668865186355
842.12768330614537
852.13199034557594
862.15214791559146
872.36581549877109
883.39319205845965
893.40626682896523
904.33396571218394
915.99901872293479
926.67516617077824
9310.8196613035559
9419.6302211144172
9550.7311243898895
 
Charts produced by software:
http://127.0.0.1/wessadotnet/public_html/freestatisticsdotorg/blog/date/2008/Nov/12/t1226487039sqzw99tdetikwzu/1jb5y1226486715.png (open in new window)
http://127.0.0.1/wessadotnet/public_html/freestatisticsdotorg/blog/date/2008/Nov/12/t1226487039sqzw99tdetikwzu/1jb5y1226486715.ps (open in new window)


http://127.0.0.1/wessadotnet/public_html/freestatisticsdotorg/blog/date/2008/Nov/12/t1226487039sqzw99tdetikwzu/23oft1226486715.png (open in new window)
http://127.0.0.1/wessadotnet/public_html/freestatisticsdotorg/blog/date/2008/Nov/12/t1226487039sqzw99tdetikwzu/23oft1226486715.ps (open in new window)


 
Parameters (Session):
par1 = ward ; par2 = ALL ; par3 = FALSE ; par4 = FALSE ;
 
Parameters (R input):
par1 = ward ; 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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