Thanks a lot Michael, Thats a great help. Best wishes, Suparna Dr. Suparna Mitra Department of Molecular and Clinical Pharmacology Institute of Translational Medicine University of Liverpool Block A: Waterhouse Buildings 1-5 Brownlow Street Liverpool L69 3GL Tel. +44 (0)151 795 5414 M: +44 (0) 7523228621 Internal ext: 55401 On 27 January 2014 21:18, Michael Love <michaelisaiahlove@gmail.com> wrote: > hi Suparna, > > CountDataSet is the class used in DESeq, while DESeqDataSet is the class > used in DESeq2. > > You can convert a CountDataSet to a DESeqDataSet using the steps outlined > in the vignette, "1.2.3 Count matrix input". > > Mike > > > > > On Sun, Jan 26, 2014 at 11:28 PM, Suparna Mitra < > suparna.mitra.sm@gmail.com> wrote: > >> Hi All, >> I am having a problem while running getVarianceStabilizedData in DDSeq2 >> package. >> >> data.vsd<-getVarianceStabilizedData(data) >> Error in (function (classes, fdef, mtable) : >> unable to find an inherited method for function ‘dispersionFunction’ for >> signature ‘"CountDataSet"’ >> >> Though the function looks okay >> > dispersionFunction >> standardGeneric for "dispersionFunction" defined from package "DESeq2" >> >> function (object) >> standardGeneric("dispersionFunction") >> <environment: 0x7fe7a9c5d140=""> >> Methods may be defined for arguments: object >> Use showMethods("dispersionFunction") for currently available ones. >> >> Can anybody please help? >> Thanks, >> Mitra. >> >> [[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 >> > > [[alternative HTML version deleted]]