[BioC] PDNN for affy.

[Stephen Nyangoma]

Thanks, Laurent for a quick reply. 

Stephen.


On Mon, 2003-10-13 at 10:36, Laurent Gautier wrote:
> Hi Stephen,
> 
> Note that the pack 'affypdnn' was developped under R-1.7.1,
> but it should work out-of-the-box with R-1.8.0 and/or
> the latest devel version of 'affy'.
> 
> I shall see if we can cram a short moment to include a function
> to do that before the end of the week...
> 
> L.
> 
> 
> On Mon, Oct 13, 2003 at 10:01:55AM +0200, Stephen Nyangoma wrote:
> > Hi all,
> > I am implementing the R for PDNN model by Laurent in R-1.7.1. The
> > function find.params.pdnn works ok and I can obtain the Bs, Ns, Fs and
> > the lambdas. I want to use equation 1 in the paper
> > 
> > Li Zhang, Michael F. Miles and Kenneth D. Aldape -
> > A model of molecular interactions on short oligonucleotide
> > arrays, 2003, Nature Biotech., vol. 21, n.7
> > 
> > to obtain the fitted values. At the moment, I cannot see how to obtain
> > the Es (especially the E^*, the average free energy for NSB). Does
> > anyone have an idea of how to generate these values?
> > 
> > Regards. Stephen.
> > 
> > _______________________________________________
> > Bioconductor mailing list
> > Bioconductor at stat.math.ethz.ch
> > https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor
> 
> -- 
> --------------------------------------------------------------
> Laurent Gautier			CBS, Building 208, DTU
> PhD. Student			DK-2800 Lyngby,Denmark	
> tel: +45 45 25 24 89		http://www.cbs.dtu.dk/laurent