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]] >> >> _______________________________________________ >> Bioconductor mailing list >> Bioconductor at stat.math.ethz.ch >> https://stat.ethz.ch/mailman/listinfo/bioconductor >> Search the archives: >> http://news.gmane.org/gmane.science.biology.informatics.conductor > > Naomi S. Altman 814-865-3791 (voice) > Associate Professor > Dept. of Statistics 814-863-7114 (fax) > Penn State University 814-865-1348 (Statistics) > University Park, PA 16802-2111 > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: > http://news.gmane.org/gmane.science.biology.informatics.conductor -- Best wishes Wolfgang -- Wolfgang Huber EMBL http://www.embl.de/research/units/genome_biology/huber/contact