Esteemed R-users,
heatmap.2() is yielding an inappropriate key based on my colors and
break-points.
In the reproducible example below, the key is inappropriate (to me) because-
1. 'Orange' is simply not represented in the key, despite its prescence
in the heatmap.
2. The proportions of the key are clearly out, ie., my largest bin, (0.1
- 0.2) is half the range, but this bin (colored "gray") clearly extnds
bellow the "0.1" tick mark of the key, beyond its specified bin.
What am i missing/doing wrong? Or for a key set up like this example is
heatmap.2() unsuitable, necessitating production with another graphics
functions? If so, recommendations appreciated. I have tried ggplot2, but
struggle getting this function producing what i need. And i just need to
make a nice key at this point.
All thoughts and suggestions greatly appreciated.
cheers,
karl
#reproducible example:
library(gplots)
set.seed(5)
mat <- matrix(runif(50, min=0, max=0.2), nrow = 10, ncol = 5)
heatmap.2(mat,
Rowv=NULL, Colv=NULL,
col = c(heat.colors(4, alpha = 1), "gray"),
breaks = c(0, 0.01, 0.05, 0.075, 0.1, 1),
trace = "none",
dendrogram = "none",
density.info = "none",
margins=c(12, 8))
--
Karl Brand <k.br...@erasmusmc.nl>
Department of Genetics
Erasmus MC
Dr Molewaterplein 50
3015 GE Rotterdam
P +31 (0)10 704 3409 | F +31 (0)10 704 4743 | M +31 (0)642 777 268
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