[Bioc-devel] adding phenodata to heatmaps

[Gregory R. Warnes]

Hello François,

I am the maintianer of the gplots package which contains the the heatmap.2
function. I would be glad to include appropriate changes to make it easier
to add additional information to the plot.  Please send me a copy of the
modified code and manual page.

-Greg


On 8/28/06 12:25 PM, "Francois Pepin" <fpepin at cs.mcgill.ca> wrote:

> Hi everyone,
> 
> 
> 
> I was curious about what people thought of the issue of adding phenodata
> 
> (or other graphical components) under a heatmap.
> 
> 
> 
> Heatmap.2 allows for a single row of colors, and the Heatplus package
> 
> allows for several covariates, including plotting continuous values. I
> 
> ended up spending a couple of hours modifying heatmap.2 to do what I
> 
> wanted (before Seth pointed out to me that Heatplus existed).
> 
> 
> 
> Would it be worth it to make that functionality more visible (maybe
> 
> putting into heatmap/heatmap.2 or a function in ExpressionSet)? At this
> 
> point, adding any graphical component to a heatmap requires
> 
> understanding the whole layout code of the function which is not
> 
> trivial.
> 
> 
> 
> I think it would be a good idea to increase its visibility and
> 
> accessibility, because it makes for much more readable figures for
> 
> people dealing with complex phenoData. Heatplus has the basic
> 
> functionality, but it does require some fiddling around to get 0/1
> 
> values for the phenoData (and they make some changes to where the sample
> 
> and gene names are placed).
> 
> 
> 
> I'd be happy to help a bit to get the functionality in if people think
> 
> it would be worth it.
> 
> 
> 
> Francois
> 
> 
> 
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