[BioC] error when running marrayNorm

[michael watson (IAH-C)]

Hi

Just to say I get this error message when my data has two many NA values in a particular print-tip area, or where too many of my data points are on the M = C * A line due to there being lots of divsion by 1.

Mick

-----Original Message-----
From: Jean Yee Hwa Yang [mailto:jean at biostat.ucsf.edu]
Sent: 25 February 2004 18:26
To: Yihuan Xu
Cc: bioconductor at stat.math.ethz.ch
Subject: Re: [BioC] error when running marrayNorm


Hi Yihuan,

I think you need to leave subset = TRUE.

You might find the function "maNorm" and maNormScale easier to use.

To do print-tip loess

data <- maNorm(faber.raw)

global loess

data <- maNorm(faber.raw, norm="l")

Cheers

Jean


On Wed, 25 Feb 2004, Yihuan Xu wrote:

> Jean,
> 
> Here is my command:
> 
> faber.norm<-maNormMain(faber.raw, f.loc = list(maNormLoess(x="maA", y="maM",
> z=NULL, w=NULL,
> subset=FALSE, span=0.4)), f.scale=NULL, a.loc=maCompNormEq(), Mloc = TRUE,
> Mscale=TRUE, echo=FALSE)
> 
> Thank you.
> 
> Yihuan
> 
> 
> 
> ----- Original Message ----- 
> From: "Jean Yee Hwa Yang" <jean at biostat.ucsf.edu>
> To: "Yihuan Xu" <yihuan.xu at jefferson.edu>
> Cc: <bioconductor at stat.math.ethz.ch>
> Sent: Wednesday, February 25, 2004 12:31 PM
> Subject: Re: [BioC] error when running marrayNorm
> 
> 
> > Hi Yihuan,
> >
> > Can you send us the command you use?
> >
> > Jean
> >
> > On Wed, 25 Feb 2004, Yihuan Xu wrote:
> >
> > > Hello, everyone,
> > >
> > > When I analyzed my microarray data set using marrayNorm package, I got
> > > following
> > > error massage:
> > >
> > > Error in simpleLoess(y, x, w, span, degree, parametric, drop.square,
> > > normalize,  :
> > >         invalid `x'
> > >
> > > However I could not find where the simpleLoess function is. What is the
> > > problem? anything wrong with my data?
> > >
> > > Thank you.
> > >
> > > Yihuan
> > >
> > > _______________________________________________
> > > Bioconductor mailing list
> > > Bioconductor at stat.math.ethz.ch
> > > https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor
> > >
> >
> >
> 
>

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