Nothing
kang <-
function (data,interaction=FALSE){
a <- nrow(data)
b <- ncol(data)
data.m <- as.matrix(data)
l.data <- length (data.m)
yield <- numeric()
vars <- numeric()
for (i in 1:nrow(data.m)){
yield[i] <- sum(data.m[i,])
vars[i] <- var(data.m[i,])
}
rank.y <- rank(-yield)
rank.v <- rank(vars)
rank.sum <- rank.y + rank.v
rank.sum <- as.data.frame(rank.sum)
means <- round(as.vector(rowMeans(data)),digits=4)
result <- as.data.frame(cbind(rownames(data),means,rank.y,rank.v,rank.sum))
colnames(result) <- c("Gen","Mean","Rank.Y","Rank.VAR","rank.sum")
rank.y <- apply(-data,2,rank)
ranks.sum.y <- apply(rank.y,1,sum)
sd.rank = round(apply(rank.y,1,sd),digits=4)
ranks.y = data.frame(rank.y,ranks.sum.y,sd.rank)
colnames(ranks.y) = c(colnames(rank.y),"Sum", "Sd")
cor.rank.y <- round(cor(ranks.y, method="pearson"), digits = 4)
geral.list <- list("Kang"=result,"Ranks"=ranks.y,"Correlations"=cor.rank.y)
if(interaction){
amb1 = data.frame(data[1:nrow(data),1])
colnames(amb1) = "amb"
ambs = amb1
amb2 <- NULL
for(j in 2:ncol(data)){
amb2 = data.frame(data[1:nrow(data),j])
colnames(amb2) = "amb"
ambs = rbind(ambs, amb2)
}
gen <- rep(1:nrow(data),ncol(data))
env <- rep(1:ncol(data),each=nrow(data))
intera.data <- data.frame(gen,env,ambs)
interaction.plot(reorder(factor(intera.data$env),intera.data$amb,mean),
intera.data$gen,intera.data$amb,legend = F, type="l",
trace.label = deparse(substitute(intera.data$gen)),
col = 1:nrow(data),xpd = NULL,xtick = F,cex.axis = 0.6,
ylab="Response",
xlab="Environment")
}
rs <- as.numeric(result[,5])
plot(result[,2],result[,5],pch=19,cex=0.5,main="Means x Rank Sum",
xlab=expression(Mean[phenotypic]),ylab=expression(rs["(rank sum)"]),
xlim=c(min(result[,2]),max(result[,2])),
ylim=c(min(result[,5]),max(result[,5])))
m <- apply(cbind(result[,2],result[,5]),2,mean)
textxy(means,rs,1:a,m=m,cex=1,col="blue")
origin(m)
return(geral.list)
}
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