[BioC] LIMMA - No residual degrees of freedom in linear model fits

[michael watson (IAH-C)]

Hi Ankit

What is the design of your experiment?  How many arrays do you have and
what are you trying to find out?  From the "design=c(1,1)" bit of your
code, it looks like you only have two arrays... Which may be the
problem!  Are you trying to compare one array to the other?  

Mick

-----Original Message-----
From: bioconductor-bounces at stat.math.ethz.ch
[mailto:bioconductor-bounces at stat.math.ethz.ch] On Behalf Of Ankit Pal
Sent: 20 May 2005 09:42
To: bioconductor at stat.math.ethz.ch
Subject: [BioC] LIMMA - No residual degrees of freedom in linear model
fits


Dear Group,
On trying to use the eBayes function, I got the
following error.

The steps are
>fit_NODS7 <- lmFit(MA_NODS7, design=c(1,1))
> fit_NODS7 <- eBayes(fit_NODS7)
Error in ebayes(fit = fit, proportion = proportion, stdev.coef.lim =
stdev.coef.lim) : 
        No residual degrees of freedom in linear model
fits

I understand that the residual degrees of freedom is
calculated by lmFit().
So why the error?
I tried looking up the bioconductor archives, but
couldn't find any reply that could help solve my
problem.
I used the same steps to analyse other datasets
without any problem.
I am using the R package version 2.0.1 on a windows
platform.
Hoping for a reply,
Thank you,
-Ankit

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