[BioC] siggenes

[Holger Schwender]

Hi Qing,

yes, that's the current version of die EBAM functions in which something like this could happen. A new version of the EBAM functions will be available in the next release of BioConductor (as far as I know at the end of April). This version will provide about the same features as the SAM functions and will be much, much more user-friendly. So please either wait for this release (I will upload the version of siggenes containing these functions to the developmental branch of Bioconductor in the beginning of March) or let me know if you need these functions immediately and I will send you a preversion of the functions (which are currently not fully tested but seem to work correctly and without such stupid warnings and errors).

Best,
Holger



-------- Original-Nachricht --------
Datum: Mon, 5 Feb 2007 20:59:42 +0800 (CST)
Von: "Qing Jing" <qjing at sibs.ac.cn>
An: bioconductor at stat.math.ethz.ch
CC: 
Betreff: [BioC] siggenes

> 
> 
> Dear Bioconductor Users,
> I am
> trying to use siggenes under R2.4.1
> windows XP professional. Here is a transcript of my session:
> 
>  
> 
> 
> 
>  
> 
> >library(siggenes)
> 
>  
> 
> > library(multtest)
> > data(golub)
> >
> find.out<-find.a0(golub,golub.cl,alpha=c(0,0.05,0.1),rand=123)
> EBAM Analysis for the two class unpaired
> case. 
>  
> 
> 
>  
> 
>         The following
> object(s) are masked _by_ .GlobalEnv :
> 
> 
>  
> 
>          x1
> 
> 
> 
>  
> 
> 
> 
>  
> 
>         The following
> object(s) are masked from mat.repeat ( position 3 )
> :
> 
> 
>  
> 
>          center
> log.bino n p success x1 x2 x3 x4 x5 
> 
> 
>  
> 
> 
> 
>  
> 
>         The following object(s) are masked from mat.repeat
> ( position 4 ) :
> 
> 
>  
> 
>          center
> log.bino n p success x1 x2 x3 x4 x5 
> 
> 
>  
> 
> 
> 
>  
> 
>         The following
> object(s) are masked from mat.repeat ( position 5 )
> :
> 
> 
>  
> 
>          center
> log.bino n p success x1 x2 x3 x4 x5 
> 
> 
>  
> 
> Error in sum(-success * (b[1] + b[2] * x1
> + b[3] * x2 + b[4] * x3 + b[5] * 
> : 
>         dim<- : dims
> [product 10] do not match the length of object
> [125]
> In addition: Warning
> message:
> longer object length
>         is not a multiple
> of shorter object length in: b[1] + b[2] * x1 + b[3] *
> x2
> 
> 
>  
> 
> 
> 
>  
> 
> 
> 
>  
> 
> It would be great, if someone could help
> me! Thanks in Advance.
> 
> 
>  
> 
> Best Wishes,
> Qing
> 
> 	[[alternative HTML version deleted]]
> 

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