Thank you Steve. I wasn't entirely sure about it. Regards, Manoj. � ________________________________ From: Steve Lianoglou <lianoglou.steve@gene.com> Cc: "bioconductor@r-project.org" <bioconductor@r-project.org> Sent: Thursday, July 11, 2013 6:17 PM Subject: Re: [BioC] DEXSeq - multiple conditions Hi Manoj, If you don't do anything special, the normal testForDEU should do what (I think) you want, which is to test if there is *any* dependence of exon usage across all conditions at once. HTH,� -steve On Thursday, July 11, 2013, Manoj Hariharan wrote: Hello, >I have 37 RNA-seq datasets for 18 human tissues - some have 3 replicates, some 2 and some do not have any (sorry to say that). > >I'm thinking of a way to do differential exon usage analysis - using DEXseq. > >I could not see any example in the documentation where multiple >conditions are compared (eg., tissues) other than pairwise comparisons (this is not a case-control kind of study). >In edgeR, I was able to use the ANOVA-like test for getting >differentially expressed genes (across all 18 tissues). I >was wondering if there is such a test I could do with DEXseq. > >Thanks, >Manoj. > >� � � � [[alternative HTML version deleted]] > >_______________________________________________ >Bioconductor mailing list >Bioconductor@r-project.org >https://stat.ethz.ch/mailman/listinfo/bioconductor >Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor > -- Steve Lianoglou Computational Biologist Bioinformatics and Computational Biology Genentech [[alternative HTML version deleted]]