B11A,steven,coomans,regressiontree,permaand | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| *Unverified author* | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| R Software Module: /rwasp_regression_trees.wasp (opens new window with default values) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Title produced by software: Recursive Partitioning (Regression Trees) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Date of computation: Mon, 31 May 2010 09:40:29 +0000 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Cite this page as follows: | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Statistical Computations at FreeStatistics.org, Office for Research Development and Education, URL http://www.freestatistics.org/blog/date/2010/May/31/t127529889279k2a8y2v8cvus7.htm/, Retrieved Mon, 31 May 2010 11:41:36 +0200 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| 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/2010/May/31/t127529889279k2a8y2v8cvus7.htm/},
year = {2010},
}
@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 = {2010},
note = {{ISBN} 3-900051-07-0},
url = {http://www.R-project.org},
}
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Original text written by user: | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| IsPrivate? | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| No (this computation is public) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| User-defined keywords: | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| B11A,steven,coomans,regressiontree,permaand | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Dataseries X: | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| » Textbox « » Textfile « » CSV « | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| 62 NA NA NA 32 30 62 62 62 30 31 58.8 58.8 58.8 70 50 56.02 56.02 56.02 30 33 55.418 55.418 55.418 30 12 53.1762 53.1762 53.1762 10 20 49.05858 49.05858 49.05858 30 30 46.152722 46.152722 46.152722 30 21.5 44.5374498 44.5374498 44.5374498 38 23 42.23370482 42.23370482 42.23370482 20 13.5 40.310334338 40.310334338 40.310334338 10 0.5 37.6293009042 37.6293009042 37.6293009042 11 12 33.91637081378 33.91637081378 33.91637081378 12 10 31.724733732402 31.724733732402 31.724733732402 10 70.5 29.5522603591618 29.5522603591618 29.5522603591618 30 33.6470343232456 33.6470343232456 33.6470343232456 31 20.5 33.2823308909211 33.2823308909211 33.2823308909211 30 12 32.0040978018290 32.0040978018290 32.0040978018290 12 20 30.0036880216461 30.0036880216461 30.0036880216461 20 45 29.0033192194815 29.0033192194815 29.0033192194815 10 11.505 30.6029872975333 30.6029872975333 30.6029872975333 50 0 28.69318856778 28.69318856778 28.69318856778 10 10 28.69318856778 28.69318856778 28.69318856778 11 5.5 24.38 etc... | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Output produced by software: | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Charts produced by software: |
| Parameters (Session): | par1 = 1 ; par2 = No ; | | Parameters (R input): | par1 = 1 ; par2 = No ; | | R code (references can be found in the software module): | library(rpart)
| library(partykit) par1 <- as.numeric(par1) autoprune <- function ( tree, method='Minimum CV'){ xerr <- tree$cptable[,'xerror'] cpmin.id <- which.min(xerr) if (method == 'Minimum CV Error plus 1 SD'){ xstd <- tree$cptable[,'xstd'] errt <- xerr[cpmin.id] + xstd[cpmin.id] cpSE1.min <- which.min( errt < xerr ) mycp <- (tree$cptable[,'CP'])[cpSE1.min] } if (method == 'Minimum CV') { mycp <- (tree$cptable[,'CP'])[cpmin.id] } return (mycp) } conf.multi.mat <- function(true, new) { if ( all( is.na(match( levels(true),levels(new) ) )) ) stop ( 'conflict of vector levels') multi.t <- list() for (mylev in levels(true) ) { true.tmp <- true new.tmp <- new left.lev <- levels (true.tmp)[- match(mylev,levels(true) ) ] levels(true.tmp) <- list ( mylev = mylev, all = left.lev ) levels(new.tmp) <- list ( mylev = mylev, all = left.lev ) curr.t <- conf.mat ( true.tmp , new.tmp ) multi.t[[mylev]] <- curr.t multi.t[[mylev]]$precision <- round( curr.t$conf[1,1] / sum( curr.t$conf[1,] ), 2 ) } return (multi.t) } x <- t(y) k <- length(x[1,]) n <- length(x[,1]) x1 <- cbind(x[,par1], x[,1:k!=par1]) mycolnames <- c(colnames(x)[par1], colnames(x)[1:k!=par1]) colnames(x1) <- mycolnames #colnames(x)[par1] m <- rpart(as.data.frame(x1)) par2 if (par2 != 'No') { mincp <- autoprune(m,method=par2) print(mincp) m <- prune(m,cp=mincp) } m$cptable bitmap(file='test1.png') plot(as.party(m),tp_args=list(id=FALSE)) dev.off() bitmap(file='test2.png') plotcp(m) dev.off() cbind(y=m$y,pred=predict(m),res=residuals(m)) myr <- residuals(m) myp <- predict(m) bitmap(file='test4.png') op <- par(mfrow=c(2,2)) plot(myr,ylab='residuals') plot(density(myr),main='Residual Kernel Density') plot(myp,myr,xlab='predicted',ylab='residuals',main='Predicted vs Residuals') plot(density(myp),main='Prediction Kernel Density') par(op) dev.off() load(file='createtable') a<-table.start() a<-table.row.start(a) a<-table.element(a,'Model Performance',6,TRUE) a<-table.row.end(a) a<-table.row.start(a) a<-table.element(a,'#',header=TRUE) a<-table.element(a,'Complexity',header=TRUE) a<-table.element(a,'split',header=TRUE) a<-table.element(a,'relative error',header=TRUE) a<-table.element(a,'CV error',header=TRUE) a<-table.element(a,'CV S.D.',header=TRUE) a<-table.row.end(a) for (i in 1:length(m$cptable[,1])) { a<-table.row.start(a) a<-table.element(a,i,header=TRUE) a<-table.element(a,round(m$cptable[i,'CP'],3)) a<-table.element(a,m$cptable[i,'nsplit']) a<-table.element(a,round(m$cptable[i,'rel error'],3)) a<-table.element(a,round(m$cptable[i,'xerror'],3)) a<-table.element(a,round(m$cptable[i,'xstd'],3)) a<-table.row.end(a) } a<-table.end(a) table.save(a,file='mytable.tab') | Copyright
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