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WS3 Task 2

*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: Tue, 11 Nov 2008 11:27:22 -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/t1226428082vndisct5x30shvf.htm/, Retrieved Tue, 11 Nov 2008 18:28:02 +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/t1226428082vndisct5x30shvf.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:
gdm
 
Dataseries X:
» Textbox « » Textfile « » CSV «
98,6 98 106,8 96,6 100,1 107,7 91,5 97,8 107,4 117,5 105,6 97,4 99,5 98 104,3 100,6 101,1 103,9 96,9 95,5 108,4 117 103,8 100,8 110,6 104 112,6 107,3 98,9 109,8 104,9 102,2 123,9 124,9 112,7 121,9 100,6 104,3 120,4 107,5 102,9 125,6 107,5 108,8 128,4 121,1 119,5 128,7 108,7 105,5 119,8 111,3 110,6 120,1 97,5 107,7 127,3 117,2 119,8 116,2 111 112,4 130,6 109,1 118,8 123,9 101,6 112,8 128 129,6 125,8 119,5 115,7 113,6 129,7 112 116,8 127 112,1 114,2 121,1 131,6 125 120,4 117,7 117,5 120,6 127,5 112,3 124,5 115,2 105,4
 
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
10
20
30
40
50
60
70
80
90
100
110
120
130.0999999999999943
140.0999999999999943
150.0999999999999943
160.0999999999999943
170.0999999999999943
180.0999999999999943
190.0999999999999943
200.0999999999999943
210.100000000000009
220.100000000000009
230.166666666666657
240.166666666666676
250.166666666666676
260.200000000000003
270.200000000000003
280.200000000000003
290.249999999999993
300.266666666666652
310.266666666666670
320.266666666666670
330.266666666666670
340.299999999999983
350.299999999999997
360.300000000000011
370.300000000000011
380.333333333333338
390.399999999999996
400.433333333333328
410.466666666666664
420.5
430.5
440.500000000000007
450.566666666666658
460.566666666666672
470.599999999999994
480.600000000000009
490.616666666666672
500.633333333333335
510.700000000000003
520.799999999999992
530.800000000000011
540.833333333333333
550.95000000000001
560.993333333333326
571
581.06666666666668
591.09047619047620
601.23333333333333
611.26190476190475
621.26666666666666
631.30000000000000
641.36666666666667
651.46
661.56666666666666
671.64999999999999
681.77333333333332
692.03333333333332
702.35000000000001
712.50000000000000
722.84571428571427
733.42666666666667
743.52857142857145
753.59833333333333
764.24444444444445
775.03333333333336
786.23051948051949
796.66619047619047
806.93051948051947
818.56999999999998
828.68545454545453
839.39722222222222
8423.4060504201681
8524.0986868686868
8626.4817460317460
8732.4009222661396
8854.2938852813852
89121.765191815857
90159.930576923077
91516.873879598662
 
Charts produced by software:
http://127.0.0.1/wessadotnet/public_html/freestatisticsdotorg/blog/date/2008/Nov/11/t1226428082vndisct5x30shvf/1gwt41226428036.png (open in new window)
http://127.0.0.1/wessadotnet/public_html/freestatisticsdotorg/blog/date/2008/Nov/11/t1226428082vndisct5x30shvf/1gwt41226428036.ps (open in new window)


http://127.0.0.1/wessadotnet/public_html/freestatisticsdotorg/blog/date/2008/Nov/11/t1226428082vndisct5x30shvf/22swh1226428036.png (open in new window)
http://127.0.0.1/wessadotnet/public_html/freestatisticsdotorg/blog/date/2008/Nov/11/t1226428082vndisct5x30shvf/22swh1226428036.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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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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