[BioC] reproducibility between reads?

[Wolfgang Huber]

Hi Pete

you could check the functionality in the DESeq package, and esp. Chapter 
3 and plots like Fig.1 in
http://www.bioconductor.org/packages/2.6/bioc/vignettes/DESeq/inst/doc/DESeq.pdf

	Best wishes
	Wolfgang


Naomi Altman wrote:
> cor(log(count.sample1+.25),log(count.sample2+.25)) works pretty well.
> 
> --Naomi
> 
> At 05:57 PM 1/29/2010, Pete Shepard wrote:
>> Dear List,
>>
>> I am attempting to measure the reproducibility of two biological 
>> replicate
>> RNA seq Solexa reads. Are there any Bioconductor packages that can handle
>> this?
>>
>> TIA
>>
>>         [[alternative HTML version deleted]]
>>
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> 
> Naomi S. Altman                                814-865-3791 (voice)
> Associate Professor
> Dept. of Statistics                              814-863-7114 (fax)
> Penn State University                         814-865-1348 (Statistics)
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-- 

Best wishes
      Wolfgang


--
Wolfgang Huber
EMBL
http://www.embl.de/research/units/genome_biology/huber/contact