Entering edit mode
@christianstratowavieboehringer-ingelheimcom-545
Last seen 10.2 years ago
Dear all,
Currently, my colors are as follows:
mycol <-
c("blue1","blue2","blue3","blue4","black","yellow4","yellow3","yellow2
","yel
low1")
heatmap(snp, Rowv=NA, Colv=NA, col=mycol)
However, I would like to have the following colors:
bright blue -> dark blue: for intensity range from 0 to 2 in steps of
0.5
(i.e. 4 grades of blue)
black: for intensity 2
dark yellow -> bright yellow: for intensity range from 2 to 8 in steps
of
0.5 (i.e. 8 grades of yellow)
You may realize that I want to display copy number data from SNP-chips
as
heatmap.
Since copynumber = 2, is the default value, I want to display it in
black,
LOH in increasing blue, and amplifications in increasing yellow.
Even though there may be higher amplification rates, a value of CN=8
should
already display the brightest yellow.
In Spotfire it is easy to achieve this, especially that CN=2 is always
displayed as black, however, I do not know how to do it in R.
Can you tell me how I have to create the colors to achieve this?
(P.S.: Of course, I could do: snp[snp>8] <- 8, but this will not solve
my
problem with asymmetric colors)
Thank you in advance
Christian Stratowa
