[BioC] help on lowess and density plot.

James W. MacDonald jmacdon at med.umich.edu
Mon Aug 30 15:56:08 CEST 2010

Hi Veerendra,

On 8/29/2010 11:39 PM, Veerendra GP wrote:
> Dear all,
> i need to ask two quections which are in my mind,
> 1.Wether lowess normalization take in yo account of dye bayes during
> normalization?

That is the intent of a loess normalization.

> 2.How density plots are drawn from MA objects (i.e, after lowess
> normalization) as it contains only M and A values not R and G values, to
> draw red and green line(peaks)
>   on the plot?

If you have both the M and A values, it is simple algebra to compute the 
R and G values.



James W. MacDonald, M.S.
Douglas Lab
University of Michigan
Department of Human Genetics
5912 Buhl
1241 E. Catherine St.
Ann Arbor MI 48109-5618
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