[BioC] Outlier detection in DEseq

[Mark Robinson]

Hi Rui.

I'll let the DESeq developers respond to your specific question, but I find that one useful visual is the output of the plotMDS.dge() -- edgeR package.

Cheers,
Mark

On 2010-10-20, at 4:25 PM, Rui Luo wrote:

> Hi all,
>    I have a question regarding to DEseq differential expression analysis.
>    In DEseq, is there any way to detect whether the library from one sample
> is totally screwed up?
>    Or for signal gene, the expression is abnormal in one sample (For this
> situation, do we just abandon this value or modify it)?
> Thanks!
> best,
> Laurie
> 
> 
> -- 
> Rui Luo
> Lab phone : 310 794-7537
> Geschwind Lab
> Human Genetics Department
> UCLA
> 
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------------------------------
Mark Robinson, PhD (Melb)
Epigenetics Laboratory, Garvan
Bioinformatics Division, WEHI
e: m.robinson at garvan.org.au
e: mrobinson at wehi.edu.au
p: +61 (0)3 9345 2628
f: +61 (0)3 9347 0852
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