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...ize the results which are more interesting to look at. > library(gplots) > sample=read.csv(file.choose()) >sample.names<-sample[,1] > sample.set<-sample[,-1] > sample.map <- as.matrix(sample.set) ### have to order as i have markers on rows so just want denrogram on triats(column) >ord <- order(rowSums(abs(sample.map)),decreasing=T) >heatmap.2(sample.map[ord,],Rowv=F,dendrogram="column",trace="none",col=greenred(10)) But I want to give colours more specifically as I want to show the QTL hotspots starting as fallow 1)...