[R] heatmap and continuous variable
Matthias Kohl
Matthias.Kohl at stamats.de
Wed Jun 25 11:36:15 CEST 2008
Hello Hans,
I put an example for heatmap.2 with colored dendrograms and additional
text under
http://www.stamats.de/Heatmap.R
hth,
Matthias
Hans-Ulrich Klein wrote:
> Gregory Warnes wrote:
>> Hello Hans,
>>
>> Do you need *both* a categorical *and* a continuous variable, or just a
>> continuous variable?
>>
>> -Greg
>>
> Hello Greg,
>
> I want to visualize survival data above the columns. So my continuous
> variable is follow up time and my categorical variable indicates the
> event. As the event has only two states (death or alive), one probably
> can omit an extra side bar for this variable and represent it by
> different colors within the plot for the follow up time. If it is
> easier to place two annotations above the heat map, that would be
> fine, too.
>
> Probably the simplest solution is: Just plot numbers (follow up times)
> in red (death) or blue(alive) above the columns. (Analogous to the
> sample names under the columns.) I do not know how to do this.
>
> Regards,
> Hans-Ulrich
>
>> On 6/24/08 4:51PM , "Hans-Ulrich Klein" <h.klein at uni-muenster.de> wrote:
>>
>>
>>> Dear All,
>>>
>>> I want to plot a heat map with annotated columns. Both functions
>>> heatmap
>>> (stats) and heatmap.2 (gplots) can plot a horizontal side bar that can
>>> be used to visualize a categorical variable. In addition to a
>>> categorical variable, I would like to visualize a continuous variable.
>>> This could be done by small bars, a curve or simply numbers above the
>>> columns. (The Sample names are already located at the bottom.)
>>>
>>> Does someone have example code for this or a similar problem? Is
>>> this so
>>> special that I have to get down to the lattice package?
>>>
>>> Thank you,
>>> Hans-Ulrich
>>>
>>
>>
>
>
--
Dr. Matthias Kohl
www.stamats.de
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