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Part 2 Q3

*Unverified author*
R Software Module: rwasp_hierarchicalclustering.wasp (opens new window with default values)
Title produced by software: Hierarchical Clustering
Date of computation: Wed, 05 Nov 2008 12:50:04 -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/05/t122591488221k3onjbw3yhrd8.htm/, Retrieved Wed, 05 Nov 2008 19:54:45 +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/05/t122591488221k3onjbw3yhrd8.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:
Van Dooren Leen
 
Dataseries X:
» Textbox « » Textfile « » CSV «
100,00 100,00 100,00 100,00 100,00 100,39 100,37 100,35 100,33 100,31 100,15 100,26 100,38 100,50 100,61 100,21 100,37 100,52 100,68 100,84 100,03 100,18 100,34 100,49 100,64 99,58 99,78 99,97 100,17 100,36 99,40 99,64 99,88 100,13 100,37 99,77 100,01 100,26 100,50 100,75 100,41 100,67 100,93 101,19 101,45 100,12 100,50 100,88 101,25 101,63 99,83 100,28 100,73 101,18 101,63 99,73 100,24 100,74 101,25 101,75 98,74 99,49 100,25 101,00 101,76 98,44 99,36 100,29 101,22 102,14 98,79 99,68 100,57 101,46 102,35 99,60 100,42 101,24 102,05 102,87 99,82 100,75 101,69 102,62 103,55 99,85 100,87 101,89 102,90 103,92 100,01 101,04 102,07 103,10 104,13 100,28 101,36 102,43 103,51 104,58 100,63 101,57 102,51 103,45 104,39 101,14 101,93 102,71 103,50 104,29 101,51 102,37 103,22 104,08 104,93 102,41 103,10 103,79 104,48 105,17 102,46 103,22 103,99 104,75 105,52 102,09 102,96 103,83 104,70 105,57 101,99 102,77 103,55 104,33 105,11 101,52 102,38 103,24 104,11 104,97 102,44 103,10 103,77 104,43 105,09 103,42 103,90 104,37 104,85 105,33 103,63 104,12 104,61 105,11 105,60 103,28 103,75 104,21 104,68 105,14 103,98 104,37 104,77 105,16 105,56 103,56 103,94 104,33 104,71 105,09 103,42 103,78 104,14 104,51 104,87 103,92 104,15 104,37 104,59 104,81 103,81 104,01 104,20 104,40 104,60 103,09 103,33 103,58 103,83 104,07 102,60 103,05 103,51 103,96 104,41 102,77 103,08 103,39 103,71 104,02 102,60 102,86 103,11 103,37 103,62 102,88 103,08 103,28 103,48 103,68 102,17 102,50 102,83 103,15 103,48 101,85 102,20 102,56 102,91 103,27 101,66 102,14 102,62 103,10 103,58 101,91 102,28 102,66 103,03 103,41 102,13 102,43 102,72 103,02 103,31 102,71 102,82 102,92 103,02 103,13 103,17 103,22 103,26 103,31 103,36 102,89 102,95 103,02 103,08 103,14 102,94 103,14 103,33 103,53 103,73 103,33 103,45 103,57 103,68 103,80 103,75 103,68 103,61 103,54 103,46 104,11 103,98 103,85 103,72 103,60 104,77 104,49 104,22 103,94 103,67 104,62 104,39 104,15 103,92 103,68 105,00 104,76 104,52 104,28 104,04 105,74 105,51 105,27 105,03 104,79 105,94 105,77 105,60 105,43 105,26 106,37 106,18 105,99 105,80 105,62 106,65 106,44 106,23 106,03 105,82 107,08 106,74 106,40 106,05 105,71 106,77 106,51 106,25 106,00 105,74 107,21 106,97 106,74 106,50 106,26 107,34 107,15 106,96 106,78 106,59 107,12 106,93 106,74 106,55 106,36 106,86 106,73 106,59 106,46 106,33 106,92 106,78 106,65 106,51 106,37 106,95 106,75 106,56 106,36 106,17 107,23 106,96 106,69 106,42 106,16 106,94 106,80 106,66 106,51 106,37 106,62 106,51 106,40 106,29 106,18 105,94 105,97 105,99 106,01 106,03 105,91 105,95 105,99 106,03 106,08 106,52 106,45 106,38 106,31 106,24 106,85 106,63 106,41 106,19 105,97 107,22 106,99 106,75 106,52 106,28 107,28 107,09 106,90 106,71 106,52 107,86 107,57 107,29 107,00 106,72 107,68 107,46 107,24 107,02 106,80 108,07 107,82 107,56 107,31 107,06 107,87 107,66 107,45 107,23 107,02 107,65 107,50 107,35 107,19 107,04 108,16 107,89 107,63 107,36 107,09 108,60 108,24 107,88 107,51 107,15 108,92 108,57 108,21 107,86 107,50 109,66 109,22 108,78 108,34 107,90 109,87 109,40 108,94 108,48 108,02 109,54 109,10 108,66 108,22 107,78 109,06 108,72 108,38 108,04 107,70
 
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'George Udny Yule' @ 72.249.76.132
R Framework
error message
The field 'Names of X columns' contains a hard return which cannot be interpreted.
Please, resubmit your request without hard returns in the 'Names of X columns'.


Summary of Dendrogram
LabelHeight
10.0299999999999917
20.0374165738677358
30.0556776436282904
40.0648074069840745
50.100995049383620
60.121243556529820
70.134164078649990
80.143527000944077
90.145945195193266
100.152970585407785
110.163300979821645
120.164316767251545
130.176068168616588
140.183468083190345
150.194679223339306
160.231948270094860
170.232379000772445
180.234103949421772
190.248596057893118
200.250998007960231
210.253771550808995
220.268328157299979
230.293257565972305
240.316227766016834
250.32929890875376
260.356651090002537
270.375233260785878
280.378681924575238
290.389230009120564
300.390256326021763
310.409267638593615
320.4135214625627
330.430346953964598
340.46100232915938
350.461194102304
360.463357313528128
370.48487111689602
380.508723893679078
390.547585436975212
400.548908006864532
410.555728689588056
420.573759531511236
430.579454755524286
440.5884185316805
450.589913722268332
460.594868748143212
470.685127189444694
480.770384067202799
490.772916554357583
500.776931204703164
510.787010512536164
520.799346901101809
530.816828616579093
540.871059575723716
550.89520203285896
560.90609935637555
570.94001867100631
580.961468904871025
590.984369290194267
601.01225549530763
611.02808640647760
621.03029301129982
631.08599465229288
641.28985922882375
651.37608026260372
661.44950354164891
671.88053848723569
682.01187015093102
692.09543557282688
702.22055097151029
712.42317860065757
722.46738313497844
732.47612233218159
742.51610705543429
753.01082863237282
764.00420962811647
774.33399374944441
784.75065421973945
796.83522687067898
808.08107479694255
818.17049499412734
829.00252795970705
8311.1322070511096
8412.9060730880405
8520.6236375216549
8629.9377708011934
8733.6455573326673
88105.896280145051
89284.448889595672
 
Charts produced by software:
http://127.0.0.1/wessadotnet/public_html/freestatisticsdotorg/blog/date/2008/Nov/05/t122591488221k3onjbw3yhrd8/14nzg1225914601.png (open in new window)
http://127.0.0.1/wessadotnet/public_html/freestatisticsdotorg/blog/date/2008/Nov/05/t122591488221k3onjbw3yhrd8/14nzg1225914601.ps (open in new window)


http://127.0.0.1/wessadotnet/public_html/freestatisticsdotorg/blog/date/2008/Nov/05/t122591488221k3onjbw3yhrd8/2jaq61225914601.png (open in new window)
http://127.0.0.1/wessadotnet/public_html/freestatisticsdotorg/blog/date/2008/Nov/05/t122591488221k3onjbw3yhrd8/2jaq61225914601.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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