[BioC] Generating heatmap of 110x3200 samples

[Wolfgang Huber]

Dear Ruppert,

for plotting large matrices, such as
   s=sin(seq(-10, 10, length=1000))
   a=outer(s,s)

try:

   library("EBImage")
   display(Image(a))

this is bitmap-based and avoids the vector-drawing costs of 'image'. 
There is also 'writeImage' to save an Image object directly to a variety 
of file formats.

This is straightforward for greyscale images only. To get colour, you 
would have to manage the colormap and the conversion into RGB 
coordinates yourself.

Best wishes
   Wolfgang

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Wolfgang Huber  EBI/EMBL  Cambridge UK  http://www.ebi.ac.uk/huber




  Valentino ha scritto:
> Hello,
>            How do I plot a heatmap of 110 samples with 3200 genes that have been clustered already in R. I tried heatmap2, it works but the plot has white dots on it and it does now show the data like it does in Cluster 3. When I looked into it I found other software doesn't plot such big samples because of memory. So does anyone know for example how to use affy() library image to plot a heatmap of 110x3200 matrix using clustered 
> 
> Ruppert
>               
>