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Hierarchical Clustering Q2

R Software Module: rwasp_hierarchicalclustering.wasp (opens new window with default values)
Title produced by software: Hierarchical Clustering
Date of computation: Sat, 03 Nov 2007 03:28:21 -0700
 
Cite this page as follows:
Statistical Computations at FreeStatistics.org, Office for Research Development and Education, URL http://www.freestatistics.org/blog/date/2007/Nov/03/llk085wcztc8pqi1194085619.htm/, Retrieved Sat, 03 Nov 2007 11:27:01 +0100
 
User-defined keywords:
 
Dataseries X:
» Textbox « » Textfile « » CSV «
99 101,5 108,4 115,4 126,6 117 106,9 93,9 103,8 107,1 89,8 100,8 99,3 93,4 110,6 99,2 101,5 104 108,3 110,4 112,6 105,6 105,9 107,3 99,5 108,4 98,9 107,4 113,9 109,8 93,1 86,1 104,9 88,1 69,4 102,2 110,7 101,2 123,9 113,1 100,5 124,9 99,6 98 112,7 93,6 106,6 121,9 98,6 90,1 100,6 99,6 96,9 104,3 114,3 125,9 120,4 107,8 112 107,5 101,2 100 102,9 112,5 123,9 125,6 100,5 79,8 107,5 93,9 83,4 108,8 116,2 113,6 128,4 112 112,9 121,1 106,4 104 119,5 95,7 109,9 128,7 96 99 108,7 95,8 106,3 105,5 103 128,9 119,8 102,2 111,1 111,3 98,4 102,9 110,6 111,4 130 120,1 86,6 87 97,5 91,3 87,5 107,7 107,9 117,6 127,3 101,8 103,4 117,2 104,4 110,8 119,8 93,4 112,6 116,2 100,1 102,5 111 98,5 112,4 112,4 112,9 135,6 130,6 101,4 105,1 109,1 107,1 127,7 118,8 110,8 137 123,9 90,3 91 101,6 95,5 90,5 112,8 111,4 122,4 128 113 123,3 129,6 107,5 124,3 125,8 95,9 120 119,5 106,3 118,1 115,7 105,2 119 113,6 117,2 142,7 129,7 106,9 123,6 112 108,2 129,6 116,8 110 146,9 126,3 96,1 108,7 112,9 100,6 99,4 115,9
 
Text written by user:
 
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 compuational 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
11.79164728671688
22.43515913237717
32.5357444666212
42.69258240356725
52.73130005674953
62.96984848098350
73.00998338865848
83.18332654337857
93.61109401705356
103.63318042491699
113.64142829120663
123.92960166560812
134.07308237088327
144.63896540189727
154.68028887864762
165.08428952755447
175.17783738639985
185.26212884676915
195.32187317710463
205.45064380660680
215.62339086568237
225.77840808527745
236.12392684889938
246.7305861047332
256.81909084849293
267.03096028947898
277.1596089278675
287.34913456270732
297.84474346298207
307.85238817176023
317.99124520960281
328.91282493757552
338.94053245683132
349.00222194794153
3510.4257717318710
3610.6772211070098
3712.5936971383860
3812.6110661241587
3912.8818845778359
4012.9054216787252
4114.6140041143875
4214.8834520095288
4315.8183545315121
4416.7560848634092
4517.6001879620435
4620.0607506544026
4722.5600877654219
4823.1070711296417
4923.7204849968144
5023.8013612175014
5127.9437875134052
5234.5613174398528
5335.800494822727
5446.3969169190889
5557.4048355662927
5658.6783222825795
57105.480880155808
58184.930899296608
59454.475580960733
 
Charts produced by software:
http://127.0.0.1/wessadotnet/public_html/freestatisticsdotorg/blog/date/2007/Nov/03/llk085wcztc8pqi1194085619/1x3tn1194085697.png (open in new window)
http://127.0.0.1/wessadotnet/public_html/freestatisticsdotorg/blog/date/2007/Nov/03/llk085wcztc8pqi1194085619/1x3tn1194085697.ps (open in new window)


 
Parameters:
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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Software written by Ed van Stee & Patrick Wessa


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