[R] heatmap.2() problems with re-ordering of rows and columns

bioinformatics_guy wwwhitener at gmail.com
Thu Sep 17 14:23:01 CEST 2009


I have a file of the following form

-11 -10 -9 -8
-10 -9   -8   NA
-9   -7    NA NA
-8    NA  NA NA

So basically a NxN matrix of log scores.  I want to get a heatmap of these
log scores but I'm having a problem. 

I'm using the following code

library(gplots)
data=read.table("filein.txt",header=FALSE)
mat=as.matrix(data)
heatmap.2(mat,dendrogram=c("none"))

But on the picture, it rearranges all my row,columns.  I want it the y axis
to be labeled from [10,-10] and the x axis to be the same [-10,10] so that
the bottom left cell is -10,-10 and the top right cell is 10,10 -- which is
the way the matrix is laid out.  Why is it rearranging my cells?

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