heatmap ordered list

2 messages · Andrea Zangrando, Martin Maechler

Tue, Oct 4, 2005 6:00 AM #

Hi,
another problem on heatmaps... after generating the graph with

myBlRd <- colorRampPalette(c("blue", "red"))
heatmap(dataHeat[Top100, ], col=myBlRd(15))

i need to retrieve the row names' list ordered by the dendrogram.
I tried with   "rownames(data)[Top100]"   but the list is not ordered 
(as i can see in the generated picture). Any tips?

Tnx
AZ

Andrea Zangrando - Ph.D. Student

University of Padova
Department of Pediatrics
Laboratory of Pediatric OncoHematology
Via Giustiniani, 3
35128 Padova - Italy
Phone: +39 049 8211457
Fax: +39 049 8211456
Email:   andrea.zangrando at unipd.it

Martin Maechler

Tue, Oct 4, 2005 9:28 AM #

Andrea> Hi,
    Andrea> another problem on heatmaps... after generating the graph with

    Andrea> myBlRd <- colorRampPalette(c("blue", "red"))
    Andrea> heatmap(dataHeat[Top100, ], col=myBlRd(15))

    Andrea> i need to retrieve the row names' list ordered by the dendrogram.
    Andrea> I tried with   "rownames(data)[Top100]"   but the list is not ordered 
    Andrea> (as i can see in the generated picture). Any tips?

Main tip :  do read the help page for functions you are using.
2nd  tip :  There's a section called  "Value:"
3rd  tip :  hence use
	    r <- heatmap(...) ## and work with 'r'

Regards,
Martin Maechler, ETH Zurich