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*Unverified author*
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 07:05:44 -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/t1226498806dcmydsff56swe0t.htm/, Retrieved Wed, 12 Nov 2008 14:06:46 +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/t1226498806dcmydsff56swe0t.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:

Post a new message
 
Original text written by user:
 
IsPrivate?
No (this computation is public)
 
User-defined keywords:
 
Dataseries X:
» Textbox « » Textfile « » CSV «
16 14 24 8 -7 -6 -10 -13 -17 -24 -11 -44 -19 -9 -36 8 8 4 24 24 29 14 4 8 7 7 3 9 16 8 -26 -30 -49 19 26 32 15 19 25 -1 2 -1 -10 -12 -20 -21 -29 -34 -14 -24 -31 -27 -16 -12 26 25 25 23 22 25 5 -7 7 19 17 13 -19 -29 -40 24 18 32 17 15 14 1 1 -5 -9 6 -14 -16 -21 -42 -21 -23 -24 -14 -15 -11 31 24 20 27 15 7 10 15 12 12 14 4 -23 -25 -37 13 14 19 26 21 16 -1 13 2 4 4 -9 -16 -16 -36 -5 13 -29 9 20 3 23 27 33 9 -8 9 2 13 13 10 12 3 -29 -25 -47 17 20 18 9 22 7 9 16 16 -10 -12 -12 -23 -13 -23 13 7 -18 13 12 11 -9 -8 -4 9 12 17 5 -13 -4 8 12 -1 -18 -25 -41 7 0 26 4 18 3
 
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 time3 seconds
R Server'Sir Ronald Aylmer Fisher' @ 193.190.124.24


Summary of Dendrogram
LabelHeight
11.73205080756888
23
33
43.16227766016838
54.12310562561766
64.24264068711928
74.24264068711928
84.24264068711928
94.24264068711928
104.47213595499958
114.58257569495584
124.58257569495584
134.69588736423469
145.09901951359278
155.19615242270663
165.3851648071345
175.48172765326135
185.76046855827592
196.16441400296898
206.4535599249993
217
227.07106781186548
237.13262084327031
247.37835882693455
257.49081315919221
267.61577310586391
278.78887653890689
289.9498743710662
2910.2312416249102
3010.8468451912246
3111.3083336271833
3211.4017542509914
3311.9112311450360
3412.0830459735946
3512.1367207232760
3613.1038723559249
3713.6651476105399
3813.7194335193147
3915.7578353437117
4016.3170691166258
4117.0293863659264
4217.3389407039620
4317.7159228541959
4421.9234741874105
4522.0141990079642
4623.8278459936162
4725.1114628651686
4826.0093030634111
4928.8107034727402
5029.5625962444557
5132.9367756335492
5238.2704933646133
5341.2117988278412
5456.8306799024852
5557.9446486426321
5677.0245219960672
5778.1775092566134
58161.284195547647
59328.024290680700
60962.535344175549
 
Charts produced by software:
http://127.0.0.1/wessadotnet/public_html/freestatisticsdotorg/blog/date/2008/Nov/12/t1226498806dcmydsff56swe0t/15p5g1226498739.png (open in new window)
http://127.0.0.1/wessadotnet/public_html/freestatisticsdotorg/blog/date/2008/Nov/12/t1226498806dcmydsff56swe0t/15p5g1226498739.ps (open in new window)


http://127.0.0.1/wessadotnet/public_html/freestatisticsdotorg/blog/date/2008/Nov/12/t1226498806dcmydsff56swe0t/2p9be1226498739.png (open in new window)
http://127.0.0.1/wessadotnet/public_html/freestatisticsdotorg/blog/date/2008/Nov/12/t1226498806dcmydsff56swe0t/2p9be1226498739.ps (open in new window)


 
Parameters (Session):
 
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')
}
 




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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