Question: Ebayes Erorr: No Residual Degrees Of Freedom In Linear Model Fits.
1
gravatar for Bingley
7.8 years ago by
Bingley10
Australia
Bingley10 wrote:

Hi,

I got an error "No residual degrees of freedom in linear model fits" when I was using eBayes to look for the differentially expressed gene. The microarray data is 4 arrays for 4 conditions. I'd like to compare them against each other.

I understand this error might be the sample size, as I can see the $df.residual is a 0 vector which leads to this error.

$df.residual [1] 0 0 0 0 0 32316 more elements ...

$sigma [1] NA NA NA NA NA 32316 more elements ...

Is there any way around? Any other good way to estimate the differentially expressed genes in this kind of situation. Thank you very much.

• 5.7k views
ADD COMMENTlink written 7.8 years ago by Bingley10
2
gravatar for Daniel Swan
7.8 years ago by
Daniel Swan13k
Aberdeen, UK
Daniel Swan13k wrote:

I'm pretty sure you need replicates to make use of this approach, and you don't appear to have any.

See also:

https://stat.ethz.ch/pipermail/bioconductor/2009-May/027834.html

You'll have to return to looking at log2 fold changes between the samples.

ADD COMMENTlink modified 7.8 years ago • written 7.8 years ago by Daniel Swan13k
0
gravatar for Bingley
7.8 years ago by
Bingley10
Australia
Bingley10 wrote:

Many thanks, Daniel.

ADD COMMENTlink written 7.8 years ago by Bingley10
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1934 users visited in the last hour