[BioC] p values of significant genes in SAM

[Holger Schwender]

Hi Assa,

when sam.out is the output of sam(...), then

> sam.out at p.value

respectively

> sam.out at q.value

will do the trick.

Best,
Holger




> --- Ursprüngliche Nachricht ---
> Von: "Assa Yeroslaviz" <frymor at gmail.com>
> An: "bioconductor at stat.math.ethz.ch" <bioconductor at stat.math.ethz.ch>
> Betreff: [BioC] p values of significant genes in SAM
> Datum: Mon, 6 Mar 2006 15:22:15 +0100
> 
> Hi,
> 
> i've got a problem extracting the p values of my significance genes.
> I did a sam analysis and want to see the p values of all of the genes and
> only of the sig. genes.
> I did
> 
> >samresult at p.value
>  to get all my p values.
> 
> but I just can't get the command to extract only the p values of my sig.
> genes.
> 
> first try was :
> > samresult at mat.sig$p.value
> NULL
> 
> second try:
> >samresult at mat.sig[,"p.value"]
> Fehler in "[.data.frame"(samList at mat.sig, , "p.value") :
>         nicht definierte Spalten gewählt
> 
> It seems i just can't connect the mat.sig and the p.values columns of my
> data.
> 
> I would like to have a table/ matrix with the names of the genes and the
> pvalues of this genes. If it is possible I would also like to have the FDR
> of this list.
> 
> I would be very happy to get some help here.
> 
> THX
> 
> 
> Assa
> --
> Assa Yeroslaviz
> Loetzener Str. 15
> 51373 Leverkusen
> 
> 	[[alternative HTML version deleted]]
> 
> 

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