I'm working on some heatmaps, and the person I'm working with would prefer a red-black-green color palette (red denoting gene induction and green denoting gene repression). Does such a palette exist already? If not, is there an easy way to create one? Thanks, Jake
Le 03.08.2005 18:23, Jake Michaelson a ??crit :>I'm working on some heatmaps, and the person I'm working with would >prefer a red-black-green color palette (red denoting gene induction and >green denoting gene repression). Does such a palette exist already? >If not, is there an easy way to create one? > >Thanks, > >Jake > >greenred in gplots is what you are looking for. Cheers, Romain -- visit the R Graph Gallery : http://addictedtor.free.fr/graphiques ~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~ ~~~~~~ Romain FRANCOIS - http://addictedtor.free.fr ~~~~~~ ~~~~ Etudiant ISUP - CS3 - Industrie et Services ~~~~ ~~ http://www.isup.cicrp.jussieu.fr/ ~~ ~~~~ Stagiaire INRIA Futurs - Equipe SELECT ~~~~ ~~~~~~ http://www.inria.fr/recherche/equipes/select.fr.html ~~~~~~ ~~~~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~
Jake Michaelson wrote:> I'm working on some heatmaps, and the person I'm working with would > prefer a red-black-green color palette (red denoting gene induction and > green denoting gene repression). Does such a palette exist already? > If not, is there an easy way to create one?See ?maPalette in the marray package of Bioconductor. HTH, Jim> > Thanks, > > Jake > > ______________________________________________ > R-help at stat.math.ethz.ch mailing list > https://stat.ethz.ch/mailman/listinfo/r-help > PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html-- James W. MacDonald Affymetrix and cDNA Microarray Core University of Michigan Cancer Center 1500 E. Medical Center Drive 7410 CCGC Ann Arbor MI 48109 734-647-5623
"Jake Michaelson" <jjmichael at comcast.net> wrote in message news:cbc7a1be7e3c68c0ccac507be8d3e7d8 at comcast.net...> I'm working on some heatmaps, and the person I'm working with would > prefer a red-black-green color palette (red denoting gene induction and > green denoting gene repression). Does such a palette exist already? > If not, is there an easy way to create one?Here are four ways: showpanel <- function(Colors) { image(matrix(1:length(Colors), ncol=1), col=Colors, xaxt="n", yaxt="n" ) } oldpar <- par(mfrow=c(4,2)) # Method 1 (colorRampPalette was new in R 2.1.0) in grDevices # Same as function with same name in dichromat package? showpanel(colorRampPalette( c("green", "black", "red"), space="rgb")(32)) showpanel(colorRampPalette( c("green", "black", "red"), space="rgb")(64)) # Method 2 library(gplots) showpanel(greenred(32)) showpanel(redgreen(64)) # Method 3 library(geneplotter) showpanel(greenred.colors(32)) showpanel(greenred.colors(64)) # Method 4 library("marray") pal <- maPalette(low="green", high="red",mid="black") maColorBar(seq(-2,2, 0.2), col=pal, horizontal=TRUE, k=0) maColorBar(seq(-2,2, 0.1), col=pal, horizontal=TRUE, k=0) efg -- Earl F. Glynn Scientific Programmer Stowers Institute for Medical Research