[BioC] arrayQualityMetrics: Binning grid too coarse for current (small) bandwidth

Florian Hahne florian at eldopa.net
Tue Mar 23 20:56:58 CET 2010

Hi Wolfgang,
I am not sure that we want to move smoothScatter from base graphics to  
grid graphics. This makes adding to the graph much harder. There is a  
grid version in the lattice package using panel.levelplot, so maybe  
Deepayan can be convinced to use grid.raster directly in there.

On 23.03.2010, at 09:32, Wolfgang Huber wrote:

>> Dear Koen,
>> Thank you for your feedback, I will have a look at the warnings you  
>> are
>> mentioning. I have seen this before on users machine during  
>> tutorials but I
>> was not able to reproduce these warnings so far, which makes it  
>> difficult to
>> correct it (I actually thought I corrected it).
>> About the size of the pdf files, what you can do is to use each of  
>> the
>> aqm.xxx functions to generate the figures one by one, and then save  
>> them
>> with your specifications to make them smaller/lighter.
> I suppose the file size problem eventually traces down to the  
> current implementation of the 'smoothScatter' function in the  
> 'graphics' package, which uses 'image'. It should be possible to  
> replace this with 'grid.raster' - I'll see whether I find time to do  
> this; or it would be great if someone were keen to provide a patch!
> Best wishes
>     Wolfgang
> --
> Wolfgang Huber
> http://www.embl.de/research/units/genome_biology/huber/contact

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