Q2-1

*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 07:27:30 -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/t1226413687oxcru6vd68uxedd.htm/, Retrieved Tue, 11 Nov 2008 14:28:10 +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/t1226413687oxcru6vd68uxedd.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:

Dataseries X:

» Textbox « » Textfile « » CSV «

103,3 101,2 107,7 110,4 101,9 115,9 89,9 88,6 117,2 123,9 100 103,6 94,1 98,7 119,5 112,7 104,4 124,7 89,1 97 121,6 118,8 114 111,5 97,2 102,5 113,4 109,8 104,9 126,1 80 96,8 117,2 112,3 117,3 111,1 102,2 104,3 122,9 107,6 121,3 131,5 89 104,4 128,9 135,9 133,3 121,3 120,5 120,4 137,9 126,1 133,2 151,1 105 119 140,4 156,6 137,1 122,7

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 Input view raw input (R code) Raw Output view raw output of R engine Computing time 2 seconds R Server 'Gwilym Jenkins' @ 72.249.127.135 Summary of Dendrogram Label Height 1 0 2 0 3 0 4 0 5 0.0999999999999943 6 0.0999999999999943 7 0.0999999999999943 8 0.100000000000009 9 0.100000000000023 10 0.133333333333326 11 0.133333333333345 12 0.200000000000003 13 0.200000000000003 14 0.200000000000003 15 0.299999999999997 16 0.299999999999997 17 0.333333333333338 18 0.399999999999996 19 0.400000000000006 20 0.400000000000006 21 0.499999999999995 22 0.566666666666672 23 0.599999999999994 24 0.600000000000009 25 0.733333333333334 26 0.799999999999997 27 0.800000000000011 28 1.20000000000000 29 1.28666666666667 30 1.33333333333335 31 1.86666666666666 32 1.89999999999998 33 1.90000000000001 34 1.96666666666666 35 2.05999999999999 36 2.13333333333333 37 2.29999999999999 38 2.49999999999999 39 2.5 40 3.73333333333335 41 4.21666666666667 42 4.48333333333334 43 5.5 44 5.65666666666667 45 6.7 46 6.81666666666667 47 8.20857142857141 48 8.30952380952378 49 13.25 50 13.6833333333333 51 14.24 52 16.6880952380953 53 29.9433333333333 54 32.955388471178 55 47.3888888888889 56 66.0507246376811 57 125.161775362319 58 148.986675020886 59 452.477023809524

Charts produced by software:

http://127.0.0.1/wessadotnet/public_html/freestatisticsdotorg/blog/date/2008/Nov/11/t1226413687oxcru6vd68uxedd/174rj1226413648.png (open in new window) http://127.0.0.1/wessadotnet/public_html/freestatisticsdotorg/blog/date/2008/Nov/11/t1226413687oxcru6vd68uxedd/174rj1226413648.ps (open in new window) http://127.0.0.1/wessadotnet/public_html/freestatisticsdotorg/blog/date/2008/Nov/11/t1226413687oxcru6vd68uxedd/20ink1226413648.png (open in new window) http://127.0.0.1/wessadotnet/public_html/freestatisticsdotorg/blog/date/2008/Nov/11/t1226413687oxcru6vd68uxedd/20ink1226413648.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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