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'GOOD'	'HIGH'	25
'GOOD'	'HIGH'	0
'GOOD'	'HIGH'	-16
'GOOD'	'HIGH'	5
'GOOD'	'HIGH'	11
'GOOD'	'HIGH'	-6
'GOOD'	'HIGH'	42
'GOOD'	'HIGH'	-2
'GOOD'	'HIGH'	-13
'GOOD'	'HIGH'	14
'GOOD'	'HIGH'	4
'GOOD'	'HIGH'	-22
'GOOD'	'HIGH'	19
'GOOD'	'HIGH'	6
'GOOD'	'HIGH'	-6
'GOOD'	'LOW'	-25
'GOOD'	'LOW'	-23
'GOOD'	'LOW'	-28
'GOOD'	'LOW'	-22
'GOOD'	'LOW'	-22
'GOOD'	'LOW'	-10
'GOOD'	'LOW'	-20
'GOOD'	'LOW'	-24
'GOOD'	'LOW'	-24
'GOOD'	'LOW'	-22
'GOOD'	'LOW'	-23
'GOOD'	'LOW'	-19
'GOOD'	'LOW'	-2
'GOOD'	'LOW'	12
'GOOD'	'LOW'	-8
'GOOD'	'LOW'	-17
'GOOD'	'LOW'	-30
'SCIENTIFIC'	'HIGH'	-19
'SCIENTIFIC'	'HIGH'	-24
'SCIENTIFIC'	'HIGH'	-4
'SCIENTIFIC'	'HIGH'	-24
'SCIENTIFIC'	'HIGH'	0
'SCIENTIFIC'	'HIGH'	-4
'SCIENTIFIC'	'HIGH'	5
'SCIENTIFIC'	'HIGH'	-1
'SCIENTIFIC'	'HIGH'	-9
'SCIENTIFIC'	'HIGH'	-5
'SCIENTIFIC'	'HIGH'	-6
'SCIENTIFIC'	'HIGH'	4
'SCIENTIFIC'	'HIGH'	-13
'SCIENTIFIC'	'HIGH'	-1
'SCIENTIFIC'	'HIGH'	-3
'SCIENTIFIC'	'HIGH'	-11
'SCIENTIFIC'	'HIGH'	-6
'SCIENTIFIC'	'HIGH'	-4
'SCIENTIFIC'	'LOW'	6
'SCIENTIFIC'	'LOW'	-5
'SCIENTIFIC'	'LOW'	14
'SCIENTIFIC'	'LOW'	-11
'SCIENTIFIC'	'LOW'	14
'SCIENTIFIC'	'LOW'	-5
'SCIENTIFIC'	'LOW'	-22
'SCIENTIFIC'	'LOW'	7
'SCIENTIFIC'	'LOW'	14
'SCIENTIFIC'	'LOW'	15
'SCIENTIFIC'	'LOW'	-6
'SCIENTIFIC'	'LOW'	9
'SCIENTIFIC'	'LOW'	-5
'NONE'	'HIGH'	-26
'NONE'	'HIGH'	-1
'NONE'	'HIGH'	22
'NONE'	'HIGH'	3
'NONE'	'HIGH'	-26
'NONE'	'HIGH'	4
'NONE'	'HIGH'	-21
'NONE'	'HIGH'	-19
'NONE'	'HIGH'	-12
'NONE'	'HIGH'	9
'NONE'	'HIGH'	-9
'NONE'	'HIGH'	-27
'NONE'	'HIGH'	-10
'NONE'	'HIGH'	-37
'NONE'	'HIGH'	0
'NONE'	'HIGH'	-10
'NONE'	'LOW'	-12
'NONE'	'LOW'	-4
'NONE'	'LOW'	13
'NONE'	'LOW'	-27
'NONE'	'LOW'	-7
'NONE'	'LOW'	-20
'NONE'	'LOW'	-4
'NONE'	'LOW'	-10
'NONE'	'LOW'	-3
'NONE'	'LOW'	-11
'NONE'	'LOW'	2
'NONE'	'LOW'	-9
'NONE'	'LOW'	20
'NONE'	'LOW'	9
'NONE'	'LOW'	-8
'NONE'	'LOW'	8
'NONE'	'LOW'	-6
'NONE'	'LOW'	6

cat1 <- as.numeric(par1) #
cat2<- as.numeric(par2) #
cat3 <- as.numeric(par3)
intercept<-as.logical(par4)
x <- t(x)
x1<-as.numeric(x[,cat1])
f1<-as.character(x[,cat2])
f2 <- as.character(x[,cat3])
xdf<-data.frame(x1,f1, f2)
(V1<-dimnames(y)[[1]][cat1])
(V2<-dimnames(y)[[1]][cat2])
(V3 <-dimnames(y)[[1]][cat3])
mynames<- c(V1, V2, V3)
xdf2<-xdf
names(xdf2)<-mynames
names(xdf)<-c('R', 'A', 'B')
mynames <- c(V1, V2, V3)
if(intercept == FALSE)eval (substitute(lmout<-lm(xdf$R ~ xdf$A * xdf$B- 1, data = xdf), list(xdf=quote(xdf2),R=mynames[1],A=mynames[2],B=mynames[3]) ))else eval(substitute(lmout<-lm(xdf$R ~ xdf$A * xdf$B, data = xdf), list(xdf=quote(xdf2),R=mynames[1],A=mynames[2],B=mynames[3]) ))

oldnames<-names(lmout$coeff)
newnames<-gsub('xdf2\\$', '', oldnames)
(names(lmout$coeff)<-newnames)
(names(lmout$coefficients)<-newnames)

load(file='createtable')
a<-table.start()
a<-table.row.start(a)
a<-table.element(a,'ANOVA Model', length(lmout$coefficients)+1,TRUE)
a<-table.row.end(a)
a<-table.row.start(a)
callstr<-gsub('xdf2\\$', '',as.character(lmout$call$formula))
callstr<-paste(callstr[2], callstr[1], callstr[3])
a<-table.element(a,callstr ,length(lmout$coefficients)+1,TRUE)
a<-table.row.end(a)

a<-table.row.start(a)
a<-table.element(a, 'names',,TRUE)
for(i in 1:length(lmout$coefficients)){
a<-table.element(a, names(lmout$coefficients[i]),,FALSE)
}
a<-table.row.end(a)


a<-table.row.start(a)
a<-table.element(a, 'means',,TRUE)
for(i in 1:length(lmout$coefficients)){
a<-table.element(a, round(lmout$coefficients[i], digits=3),,FALSE)
}
a<-table.row.end(a)
a<-table.end(a)
table.save(a,file='mytable.tab')

(aov.xdf<-aov(lmout) )
(anova.xdf<-anova(lmout) )
rownames(anova.xdf)<-gsub('xdf2\\$','',rownames(anova.xdf))

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, ' ',,TRUE)
a<-table.element(a, 'Df',,FALSE)
a<-table.element(a, 'Sum Sq',,FALSE)
a<-table.element(a, 'Mean Sq',,FALSE)
a<-table.element(a, 'F value',,FALSE)
a<-table.element(a, 'Pr(>F)',,FALSE)
a<-table.row.end(a)
for(i in 1 : length(rownames(anova.xdf))-1){
a<-table.row.start(a)
a<-table.element(a,rownames(anova.xdf)[i] ,,TRUE)
a<-table.element(a, anova.xdf$Df[1],,FALSE)
a<-table.element(a, round(anova.xdf$'Sum Sq'[i], digits=3),,FALSE)
a<-table.element(a, round(anova.xdf$'Mean Sq'[i], digits=3),,FALSE)
a<-table.element(a, round(anova.xdf$'F value'[i], digits=3),,FALSE)
a<-table.element(a, round(anova.xdf$'Pr(>F)'[i], digits=3),,FALSE)
a<-table.row.end(a)
}
a<-table.row.start(a)
a<-table.element(a, 'Residuals',,TRUE)
a<-table.element(a, anova.xdf$'Df'[i+1],,FALSE)
a<-table.element(a, round(anova.xdf$'Sum Sq'[i+1], digits=3),,FALSE)
a<-table.element(a, round(anova.xdf$'Mean Sq'[i+1], digits=3),,FALSE)
a<-table.element(a, ' ',,FALSE)
a<-table.element(a, ' ',,FALSE)
a<-table.row.end(a)
a<-table.end(a)
table.save(a,file='mytable1.tab')
bitmap(file='anovaplot.png')
boxplot(R ~ A + B, data=xdf, xlab=V2, ylab=V1, main='Boxplots of ANOVA Groups',cex.axis=0.7 )
dev.off()
bitmap(file='designplot.png')
xdf2 <- xdf # to preserve xdf make copy for function
names(xdf2) <- c(V1, V2, V3)
plot.design(xdf2, main='Design Plot of Group Means')
dev.off()
bitmap(file='interactionplot.png')
interaction.plot(xdf$A, xdf$B, xdf$R, xlab=V2, ylab=V1, trace.label=V3, main='Possible Interactions Between Anova Groups')
dev.off()
if(intercept==TRUE){
thsd<-TukeyHSD(aov.xdf)
names(thsd) <- c(V2, V3, paste(V2, ':', V3, sep=''))
bitmap(file='TukeyHSDPlot.png')
par(mai=c(1,1.5,1,1))
layout(matrix(c(1,2,1,2,3,3,3,3), 2,4))
plot(thsd, las=1)
dev.off()
}
if(intercept==TRUE){
ntables<-length(names(thsd))
a<-table.start()
a<-table.row.start(a)
a<-table.element(a,'Tukey Honest Significant Difference Comparisons', 5,TRUE)
a<-table.row.end(a)
a<-table.row.start(a)
a<-table.element(a, ' ', 1, TRUE)
for(i in 1:4){
a<-table.element(a,colnames(thsd[[1]])[i], 1, TRUE)
}
a<-table.row.end(a)
for(nt in 1:ntables){
for(i in 1:length(rownames(thsd[[nt]]))){
a<-table.row.start(a)
a<-table.element(a,rownames(thsd[[nt]])[i], 1, TRUE)
for(j in 1:4){
a<-table.element(a,round(thsd[[nt]][i,j], digits=3), 1, FALSE)
}
a<-table.row.end(a)
}
} # end nt
a<-table.end(a)
table.save(a,file='hsdtable.tab')
}#end if hsd tables
if(intercept==FALSE){
a<-table.start()
a<-table.row.start(a)
a<-table.element(a,'TukeyHSD Message', 1,TRUE)
a<-table.row.end(a)
a<-table.start()
a<-table.row.start(a)
a<-table.element(a,'Must Include Intercept to use Tukey Test ', 1, FALSE)
a<-table.row.end(a)
a<-table.end(a)
table.save(a,file='mytable2.tab')
}
library(car)
lt.lmxdf<-levene.test(lmout)
a<-table.start()
a<-table.row.start(a)
a<-table.element(a,'Levenes Test for Homogeneity of Variance', 4,TRUE)
a<-table.row.end(a)
a<-table.row.start(a)
a<-table.element(a,' ', 1, TRUE)
for (i in 1:3){
a<-table.element(a,names(lt.lmxdf)[i], 1, FALSE)
}
a<-table.row.end(a)
a<-table.row.start(a)
a<-table.element(a,'Group', 1, TRUE)
for (i in 1:3){
a<-table.element(a,round(lt.lmxdf[[i]][1], digits=3), 1, FALSE)
}
a<-table.row.end(a)
a<-table.row.start(a)
a<-table.element(a,' ', 1, TRUE)
a<-table.element(a,lt.lmxdf[[1]][2], 1, FALSE)
a<-table.element(a,' ', 1, FALSE)
a<-table.element(a,' ', 1, FALSE)
a<-table.row.end(a)
a<-table.end(a)
table.save(a,file='mytable3.tab')