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*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, 30 Dec 2009 06:17:52 -0700
 
Cite this page as follows:
Statistical Computations at FreeStatistics.org, Office for Research Development and Education, URL http://www.freestatistics.org/blog/date/2009/Dec/30/t12621791917hadvmy5f73mw9l.htm/, Retrieved Wed, 30 Dec 2009 14:19:54 +0100
 
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/2009/Dec/30/t12621791917hadvmy5f73mw9l.htm/},
    year = {2009},
}
@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 = {2009},
    note = {{ISBN} 3-900051-07-0},
    url = {http://www.R-project.org},
}
 
Original text written by user:
 
IsPrivate?
No (this computation is public)
 
User-defined keywords:
 
Dataseries X:
» Textbox « » Textfile « » CSV «
4930,63 6284,63 13339,63 8935,63 -419,37 1220,63 -5094,37 -5561,37 -2732,37 -316,37 -3929,37 -9291,37 6644,63 2492,63 5997,63 3383,63 -693,37 3945,63 -5128,37 -4368,37 -3414,37 -3313,37 -4619,37 -12400,37 8857,63 6407,63 11407,63 4066,63 3637,63 592,63 -4941,37 -5770,37 -4893,37 -2103,37 -5716,37 -13731,37 8025,63 3452,63 7552,63 2760,63 2001,63 2679,63 -2680,37 -4410,37 -2674,37 1677,63 -3284,37 -10360,37 8467,63 7012,63 6920,63 8835,63 2727,63 3736,63 -2893,37 -5309,37 -2578,37 -580,37 -7526,37 -11589,37 2348,63 991,63 4687,63 3096,63 -2582,37 -339,37 -4070,37 -6127,37 -3062,37 -613,37
 
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 time1 seconds
R Server'Gwilym Jenkins' @ 72.249.127.135


Summary of Dendrogram
LabelHeight
14
26
322
423
529
633
733
834
942
1048
1154
1269
1371.3333333333333
1475
1592
1699
17111.333333333333
18114.333333333333
19117.666666666667
20121
21123
22141
23144
24144.333333333333
25169
26224.666666666667
27229
28243
29243.466666666667
30252.666666666667
31292.666666666667
32324
33357
34405.666666666667
35441.999999999999
36480.533333333333
37528
38552
39595.2
40597.333333333333
41608.333333333333
42668
43692.066666666667
44750.666666666667
45811
46856.2
47900.333333333333
481069
491192.66666666667
501244.76190476190
511641.86666666667
521916.19047619048
531932
542045
552353.24444444444
562362.78181818182
572709.66666666667
582971.34920634921
594699.8
604832.55555555555
617225.66666666667
628681.30952380952
6311363.3906432749
6413035.6904761905
6516039.7005347594
6630379.1821631879
6753248.3048532403
6858292.7744360902
69217605.24015444


Summary of Cut Dendrogram
LabelHeight
1635.033333333333
2720.5
3762.2
4828.333333333333
51192.07142857143
61283.15714285714
71428.66666666667
81736.5
91932
102299.5
112347.93888888889
122519.025
134043.11485714286
145683.33333333333
155980.4729047619
168396.22777777777
1718966.239827957
1823389.3828034188
1968462.2439264473
 
Charts produced by software:
http://www.freestatistics.org/blog/date/2009/Dec/30/t12621791917hadvmy5f73mw9l/1s4f61262179069.png (open in new window)
http://www.freestatistics.org/blog/date/2009/Dec/30/t12621791917hadvmy5f73mw9l/1s4f61262179069.ps (open in new window)


http://www.freestatistics.org/blog/date/2009/Dec/30/t12621791917hadvmy5f73mw9l/2t1px1262179069.png (open in new window)
http://www.freestatistics.org/blog/date/2009/Dec/30/t12621791917hadvmy5f73mw9l/2t1px1262179069.ps (open in new window)


 
Parameters (Session):
par1 = ward ; par2 = 20 ; par3 = FALSE ; par4 = FALSE ;
 
Parameters (R input):
par1 = ward ; par2 = 20 ; 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')
}
 




Copyright

Creative Commons License

This work is licensed under a Creative Commons Attribution-Noncommercial-Share Alike 3.0 License.

Software written by Ed van Stee & Patrick Wessa


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