Using the heatmap function, is there a way to suppress the column reordering and column dendrogram? I have five time points and I want to keep them in order! I have tried the following commands, but still get reordered columns: heatmap(x, Colv=FALSE... heatmap(x, Colv=NULL... Also, is there a way to suppress the row dendrogram, but still reorder the rows according to some dendrogram? I was hoping to gain space for my row labels by omitting the dendrogram. I have tried the following command, but still get the dendrogram: heatmap(x, Rowv=as.dendrogram(hc), keep.dendro=FALSE)

On 10/26/05 11:10 AM, "Ann Hess" <hess at="" stat.colostate.edu=""> wrote: > Using the heatmap function, is there a way to suppress the column > reordering and column dendrogram? I have five time points and I want to > keep them in order! I have tried the following commands, but still get > reordered columns: > > heatmap(x, Colv=FALSE... > heatmap(x, Colv=NULL... > > Also, is there a way to suppress the row dendrogram, but still reorder the > rows according to some dendrogram? I was hoping to gain space for my row > labels by omitting the dendrogram. I have tried the following command, > but still get the dendrogram: > > heatmap(x, Rowv=as.dendrogram(hc), keep.dendro=FALSE) I like heatmap.2 from the gplots package which has a dendrogram=c('row','column','none') argument. Sean

On 10/26/05 11:18 AM, "Ann Hess" <hess at="" stat.colostate.edu=""> wrote: > Sean- > > Where do you get the gplots package? I don't see it listed with the BioC > 1.7 packages. CRAN. You can install package gregmisc which contains gplots as well as the other packages on which it depends. Sean

Hi Ann, > Using the heatmap function, is there a way to suppress the column > reordering and column dendrogram? I have five time points and I want to > keep them in order! I have tried the following commands, but still get > reordered columns: > > heatmap(x, Colv=FALSE... > heatmap(x, Colv=NULL... Try: heatmap(x, Colv=NA,... > Also, is there a way to suppress the row dendrogram, but still reorder the > rows according to some dendrogram? I was hoping to gain space for my row > labels by omitting the dendrogram. I have tried the following command, > but still get the dendrogram: > > heatmap(x, Rowv=as.dendrogram(hc), keep.dendro=FALSE) Try using the index of the rows in your dendrogram: myDendro <- as.dendrogram(hc) rowInd <- order.dendrogram(myDendro) heatmap(x[rowInd,], Rowv=NA, ... Lourdes