# [R] specifying colors in a heatmap/image -like plot

kerimcan kkavakli at mail.rochester.edu
Sun Feb 7 22:57:01 CET 2010

```Hi,

I have searched for a solution but I failed to find an answer. I am hoping
you may be able to help me.

I have a data set where I have observations for a number of units (n =~40)
over a period of time (t =~100) and I have a variable (Z) that codes a
categorical variable for each observation. I want to produce a 2D plot where
time is on the x-axis and units are on the y-axis. Then each block on the
2-d plot should take a color depending on variable Z. Z is not ordered so
using a scale (like in heatmaps) does not make sense. In fact the values of
Z have meanings that are intuitively related to colors (e.g. Z=3 means
involvement by the "United Nations" so I want its color to be "blue"). Below
is some code that gives an example of what I am aiming to do and why
"heatmap" and "image" functions don't work for me. Thanks in advance for
your help.

# Example: Suppose Z had 3 values (0,1,2) and I had 8 observations.

hitmep <- matrix(c(0,2,1,0,2,1,1,0),2,4)

# Graph 1:
heatmap(hitmep2, Rowv =NA, Colv =NA, labrow =NULL, scale ="none")
# Graph 2:
image(t(hitmep2), axes =FALSE)

# I like the layout of the plots. My problem with these is that I don't want
Z's values (0,1,2) to have colors on a scale. I want to specify, for
example, 1="blue", 2="yellow" and 3="green". Do you know how to do this?

Thanks in advance,
Kerim Can Kavakli

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