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R Software Module: rwasp_hierarchicalclustering.wasp (opens new window with default values)
Title produced by software: Hierarchical Clustering
Date of computation: Tue, 11 Nov 2008 07:39:45 -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/11/t1226414531k3b51gt9o2d6ktk.htm/, Retrieved Tue, 11 Nov 2008 14:42:11 +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/11/t1226414531k3b51gt9o2d6ktk.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:
 
Dataseries X:
» Textbox « » Textfile « » CSV «
113.5 86.7 105.1 121.2 123.6 106.1 130.4 125.3 106.2 115.2 111.1 103.9 117.9 98.4 109.2 110.7 102.3 110.5 107.6 105 98 124.3 128.2 94.1 115.1 124.7 90.2 112.5 116.1 89.5 127.9 131.2 91.2 117.4 97.7 98.2 119.3 88.8 103.7 130.4 132.8 103.9 126 113.9 106.5 125.4 112.6 107.2 130.5 104.3 111 115.9 107.5 111.8 108.7 106 101.5 124 117.3 95.3 119.4 123.1 92.7 118.6 114.3 93.5 131.3 132 96.2 111.1 92.3 102.1 124.8 93.7 102.3 132.3 121.3 127.9 126.7 113.6 130.8 131.7 116.3 134.9 130.9 98.3 141.9 122.1 111.9 124.6 113.2 109.3 118 133.6 133.2 115.1 119.2 118 111.2 129.4 131.6 113.5 131.4 134.1 115.2 117.1 96.7 119.4 130.5 99.8 116 132.3 128.3 115.7 140.8 134.9 121.1 137.5 130.7 120.8 128.6 107.3 125.2 126.7 121.6 124 120.8 120.6 119.1 139.3 140.5 119.2 128.6 124.8 113.9 131.3 129.9 113.3 136.3 159.4 116.8 128.8 111 114.8 133.2 110.1 119.2 136.3 132.7 117.8 151.1 135 122.5 145 118.6 125.1 134.4 94 125 135.7 117.9 125.1 128.7 114.7 121.2 129.2 113.6 118.9 138.6 130.6 109.8 132.7 117.1 109.2 132.5 123.2 109 137.3 106.1 110.9 127.1 87.9 112.5
 
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'Sir Ronald Aylmer Fisher' @ 193.190.124.24


Summary of Dendrogram
LabelHeight
11.59373774505093
22.37907545067406
32.55734237050888
42.59807621135332
53.8
63.80263066836631
74.0816663263917
84.45829581190374
95.22494019104526
105.51089829338194
115.56417109729741
126.10081961706785
136.28728876384725
146.32534584034738
156.43428317685817
166.72681202353685
176.99785681476836
187.00713921654193
197.12985858732804
207.72056151345617
217.72072343062587
227.73433901506781
237.83390068867356
247.98561206170198
258.23086333139814
268.29095893126965
278.45776221595458
289.35788437628932
299.444386101224
309.5011180359823
3110.0061742748590
3210.3387620148642
3311.1573442569792
3412.0628499055602
3512.3572457285955
3613.217693603268
3714.0962442452182
3814.9474800593632
3915.1424468017548
4015.708278072405
4115.7579726898407
4215.7993345108026
4316.4272226075348
4417.5738266508734
4521.3917294064651
4623.5299040561548
4725.1470872866848
4825.5296376968808
4929.3247832914832
5033.6304876040799
5136.8822336342844
5237.1652889749875
5338.2736682570203
5443.8804750691244
5552.2488348693888
5675.5357412480829
5781.0028999603408
58175.362324679967
59207.207751472331
60322.391421966265
 
Charts produced by software:
http://127.0.0.1/wessadotnet/public_html/freestatisticsdotorg/blog/date/2008/Nov/11/t1226414531k3b51gt9o2d6ktk/1jcsj1226414381.png (open in new window)
http://127.0.0.1/wessadotnet/public_html/freestatisticsdotorg/blog/date/2008/Nov/11/t1226414531k3b51gt9o2d6ktk/1jcsj1226414381.ps (open in new window)


http://127.0.0.1/wessadotnet/public_html/freestatisticsdotorg/blog/date/2008/Nov/11/t1226414531k3b51gt9o2d6ktk/28vec1226414381.png (open in new window)
http://127.0.0.1/wessadotnet/public_html/freestatisticsdotorg/blog/date/2008/Nov/11/t1226414531k3b51gt9o2d6ktk/28vec1226414381.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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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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