[BioC] LIMMA on RT-PCR data

Ryan rct at thompsonclan.org
Tue Nov 12 13:21:49 CET 2013


I don't think you want limma. limma is for sharing information about 
variance across many genes to make up for few samples per gene, and you 
have the opposite scenario: only have 4 genes but many samples. I think 
you just want the base R "lm" function.


On Tue Nov 12 03:16:25 2013, Sandhya Pemmasani Kiran wrote:
> Dear list,
> I have RT-PCR data on 4 genes and 85 samples.
> Can I use 'limma' on this small set of genes.
> I want to use limma rather than usual paired t-test because I have missing values and I don't want to miss the information available on paired samples..
> Please advise.
> Thanks,
> Sandhya
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