library(boot)
cat1 <- as.numeric(par1)
cat2<- as.numeric(par2)
intercept<-as.logical(par3)
x <- na.omit(t(x))
rsq <- function(formula, data, indices) {
d <- data[indices,] # allows boot to select sample
fit <- lm(formula, data=d)
return(summary(fit)$r.square)
}
xdf<-data.frame(na.omit(t(y)))
(V1<-dimnames(y)[[1]][cat1])
(V2<-dimnames(y)[[1]][cat2])
xdf <- data.frame(xdf[[cat1]], xdf[[cat2]])
names(xdf)<-c('Y', 'X')
if(intercept == FALSE) (lmxdf<-lm(Y~ X - 1, data = xdf) ) else (lmxdf<-lm(Y~ X, data = xdf) )
(results <- boot(data=xdf, statistic=rsq, R=1000, formula=Y~X))
sumlmxdf<-summary(lmxdf)
(aov.xdf<-aov(lmxdf) )
(anova.xdf<-anova(lmxdf) )
load(file='createtable')
a<-table.start()
nc <- ncol(sumlmxdf$'coefficients')
nr <- nrow(sumlmxdf$'coefficients')
a<-table.row.start(a)
a<-table.element(a,'Linear Regression Model', nc+1,TRUE)
a<-table.row.end(a)
a<-table.row.start(a)
a<-table.element(a, lmxdf$call['formula'],nc+1)
a<-table.row.end(a)
a<-table.row.start(a)
a<-table.element(a, 'coefficients:',1,TRUE)
a<-table.element(a, ' ',nc,TRUE)
a<-table.row.end(a)
a<-table.row.start(a)
a<-table.element(a, ' ',1,TRUE)
for(i in 1 : nc){
a<-table.element(a, dimnames(sumlmxdf$'coefficients')[[2]][i],1,TRUE)
}#end header
a<-table.row.end(a)
for(i in 1: nr){
a<-table.element(a,dimnames(sumlmxdf$'coefficients')[[1]][i] ,1,TRUE)
for(j in 1 : nc){
a<-table.element(a, round(sumlmxdf$coefficients[i, j], digits=3), 1 ,FALSE)
}
a<-table.row.end(a)
}
a<-table.row.start(a)
a<-table.element(a, '- - - ',1,TRUE)
a<-table.element(a, ' ',nc,FALSE)
a<-table.row.end(a)
a<-table.row.start(a)
a<-table.element(a, 'Residual Std. Err. ',1,TRUE)
a<-table.element(a, paste(round(sumlmxdf$'sigma', digits=3), ' on ', sumlmxdf$'df'[2], 'df') ,nc, FALSE)
a<-table.row.end(a)
a<-table.row.start(a)
a<-table.element(a, 'Multiple R-sq. ',1,TRUE)
a<-table.element(a, round(sumlmxdf$'r.squared', digits=3) ,nc, FALSE)
a<-table.row.end(a)
a<-table.row.start(a)
a<-table.element(a, '95% CI Multiple R-sq. ',1,TRUE)
a<-table.element(a, paste('[',round(boot.ci(results,type='bca')$bca[1,4], digits=3),', ', round(boot.ci(results,type='bca')$bca[1,5], digits=3), ']',sep='') ,nc, FALSE)
a<-table.row.end(a)
a<-table.row.start(a)
a<-table.element(a, 'Adjusted R-sq. ',1,TRUE)
a<-table.element(a, round(sumlmxdf$'adj.r.squared', digits=3) ,nc, FALSE)
a<-table.row.end(a)
a<-table.end(a)
table.save(a,file='mytable.tab')
a<-table.start()
a<-table.row.start(a)
a<-table.element(a,'ANOVA Statistics', 5+1,TRUE)
a<-table.row.end(a)
a<-table.row.start(a)
a<-table.element(a, ' ',1,TRUE)
a<-table.element(a, 'Df',1,TRUE)
a<-table.element(a, 'Sum Sq',1,TRUE)
a<-table.element(a, 'Mean Sq',1,TRUE)
a<-table.element(a, 'F value',1,TRUE)
a<-table.element(a, 'Pr(>F)',1,TRUE)
a<-table.row.end(a)
a<-table.row.start(a)
a<-table.element(a, V2,1,TRUE)
a<-table.element(a, anova.xdf$Df[1])
a<-table.element(a, round(anova.xdf$'Sum Sq'[1], digits=3))
a<-table.element(a, round(anova.xdf$'Mean Sq'[1], digits=3))
a<-table.element(a, round(anova.xdf$'F value'[1], digits=3))
a<-table.element(a, round(anova.xdf$'Pr(>F)'[1], digits=3))
a<-table.row.end(a)
a<-table.row.start(a)
a<-table.element(a, 'Residuals',1,TRUE)
a<-table.element(a, anova.xdf$Df[2])
a<-table.element(a, round(anova.xdf$'Sum Sq'[2], digits=3))
a<-table.element(a, round(anova.xdf$'Mean Sq'[2], digits=3))
a<-table.element(a, ' ')
a<-table.element(a, ' ')
a<-table.row.end(a)
a<-table.end(a)
table.save(a,file='mytable1.tab')
bitmap(file='regressionplot.png')
plot(Y~ X, data=xdf, xlab=V2, ylab=V1, main='Regression Solution')
if(intercept == TRUE) abline(coef(lmxdf), col='red')
if(intercept == FALSE) abline(0.0, coef(lmxdf), col='red')
dev.off()
library(car)
bitmap(file='residualsQQplot.png')
qqPlot(resid(lmxdf), main='QQplot of Residuals of Fit')
dev.off()
bitmap(file='residualsplot.png')
plot(xdf$X, resid(lmxdf), main='Scatterplot of Residuals of Model Fit')
dev.off()
bitmap(file='cooksDistanceLmplot.png')
plot(lmxdf, which=4)
dev.off()
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