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hierarchical clustering

*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: Thu, 13 Nov 2008 01:23:58 -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/13/t12265646859phfukjnotj0jgg.htm/, Retrieved Thu, 13 Nov 2008 08:24:48 +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/13/t12265646859phfukjnotj0jgg.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)
 
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Original text written by user:
 
IsPrivate?
No (this computation is public)
 
User-defined keywords:
natalie en evelyn
 
Dataseries X:
» Textbox « » Textfile « » CSV «
3.253 11.836 345 6.06 519164 3.233 11.85 334 5.983 517009 3.196 11.897 345 6.11 509933 3.138 12.082 333 6.143 509127 3.091 11.936 336 6.093 500857 3.17 11.928 324 6.148 506971 3.378 12.646 320 6.464 569323 3.468 12.747 330 6.532 579714 3.33 12.447 313 6.321 577992 3.413 12.445 301 6.23 565464 3.356 12.257 288 6.176 547344 3.525 12.878 294 6.338 554788 3.633 13.69 302 6.462 562325 3.597 13.665 294 6.401 560854 3.6 13.78 293 6.46 555332 3.522 13.608 290 6.519 543599 3.503 13.375 283 6.542 536662 3.532 13.376 286 6.637 542722 3.686 13.918 293 7.114 593530 3.748 14.304 334 7.579 610763 3.672 13.877 329 7.408 612613 3.843 14.543 411 8.243 611324 3.905 14.291 416 8.243 594167 3.999 14.788 418 8.434 595454 4.07 15.241 408 8.576 590865 4.084 15.265 402 8.58 589379 4.042 15.322 401 8.645 584428 3.951 15.175 400 8.66 573100 3.933 14.817 389 8.72 567456 3.958 14.579 371 8.787 569028 4.147 15.247 364 9.162 620735 4.221 15.385 350 9.144 628884 4.058 14.891 332 8.806 628232 4.057 14.766 323 8.778 612117 4.089 14.42 316 8.66 595404 4.268 14.85 312 8.826 597141 4.309 15.117 315 8.609 593408 4.303 15.352 314 8.628 590072 4.177 15.099 313 8.619 579799 4.117 15.291 314 8.775 574205 4.065 15.208 317 8.84 572775 3.983 14.995 308 8.745 572942 4.091 15.454 312 9.092 619567 4.067 15.251 306 8.934 625809 4.024 14.975 304 8.749 619916 3.868 14.005 297 8.298 587625 3.8 13.55 284 8.067 565742 3.804 13.422 278 7.969 557274 3.862 13.848 273 7.999 560576 3.792 13.376 265 7.865 548854 3.674 13.038 259 7.746 531673 3.56 12.974 252 7.633 525919 3.489 12.554 245 7.458 511038 3.412 11.971 235 7.391 498662 3.674 12.916 232 7.856 555362 3.672 12.757 229 7.72 564591 3.463 11.924 219 7.297 541657 3.429 11.693 218 7.123 527070 3.4 11.382 215 7.004 509846 3.533 11.821 211 7.151 514258
 
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 time1 seconds
R Server'Gwilym Jenkins' @ 72.249.127.135


Summary of Dendrogram
LabelHeight
167.9977998761725
286.7432426993596
3113.596631112018
4123.984114930099
5156.429236643922
6167.242521859723
7278.527817933865
8278.796802919259
9289.762161891826
10299.39183224998
11349.092182065139
12496.039126930528
13566.260105465677
14652.248713949671
15698.564999004388
16724.895682673861
17877.009160640868
18901.644512415745
19970.996119145077
201151.50289544664
211210.53727415798
221259.34343342751
231290.18764759486
241510.17657741669
251714.60025740463
261786.42834098913
271825.60389537059
282053.90963877567
292115.61348767789
302155.02807557697
312193.78964305037
322197.32286864493
332247.02221327751
342323.81062735360
352972.10862885681
363198.69143325423
373448.21997348197
384234.56471482392
394389.37624872946
404989.05788625728
415205.10868100962
427076.79427013232
437999.42063392513
4411112.7154874694
4512275.9457534153
4616125.7519054347
4717934.1541164364
4819877.1778603823
4921068.8487006290
5024190.9911248107
5130990.7520222620
5240318.9888066459
5346212.8505912751
5447469.9915188774
5583355.6568679397
56197028.403986017
57222619.182020617
58516870.818754392
591071641.93582343
 
Charts produced by software:
http://127.0.0.1/wessadotnet/public_html/freestatisticsdotorg/blog/date/2008/Nov/13/t12265646859phfukjnotj0jgg/1xz5a1226564636.png (open in new window)
http://127.0.0.1/wessadotnet/public_html/freestatisticsdotorg/blog/date/2008/Nov/13/t12265646859phfukjnotj0jgg/1xz5a1226564636.ps (open in new window)


http://127.0.0.1/wessadotnet/public_html/freestatisticsdotorg/blog/date/2008/Nov/13/t12265646859phfukjnotj0jgg/297391226564636.png (open in new window)
http://127.0.0.1/wessadotnet/public_html/freestatisticsdotorg/blog/date/2008/Nov/13/t12265646859phfukjnotj0jgg/297391226564636.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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