[BioC] limma ebayes

[Gordon Smyth]

Sorry, Jim, this isn't the problem here. Kninh has used lm.series, not lmFit.

Gordon

At 12:00 PM 17/01/2004, James MacDonald wrote:
>Actually it is because the release version has a bug when you pass an
>exprSet to lmFit. The devel version has the fix, or you can hack the
>line (about line 30 or so)
>
>if(is.list(object)){
>
>to read
>
>if(is.list(object) & !is(object, "exprSet"){
>
>Best,
>
>Jim
>
>
>
>James W. MacDonald
>Affymetrix and cDNA Microarray Core
>University of Michigan Cancer Center
>1500 E. Medical Center Drive
>7410 CCGC
>Ann Arbor MI 48109
>734-647-5623
> >>> Naomi Altman <naomi at stat.psu.edu> 01/16/04 3:06 PM >>>
>Dear Ken,
>This error message is due to having too many parameters for the number
>of
>observations.  You need to provide:
>
>the experiment design (i.e. how many arrays for each condition and the
>set
>of conditions)
>the design matrix you sent to the program
>
>Without this information, no-one can assist you.
>
>--Naomi Altman
>
>
>At 10:11 AM 1/16/2004, kninh at mdanderson.org wrote:
>
>
> >Hello Limma Developers,
> >I got this error when calling ebayes after  lm.series:
> >
> >Error in ebayes(fit) : No residual degrees of freedom in linear model
>fits
> >
> >I tried both limma 1.3.1 and 1.3.12.   I appreciate your help.
> >
> >thanks,
> >Ken Ninh