Thanks a lot Paul for the suggestion. On Sun, Dec 16, 2012 at 2:50 PM, Paul Geeleher <paulgeeleher@gmail.com>wrote: > I think you'd first have to summarize the "expression level" of each > pathway somehow, the easiest thing to do is probably to summarize them > by their median. Then calculate the corrleation between the median of > each of your pathways. > > Paul. > > On Sat, Dec 15, 2012 at 4:13 PM, Alyaa Mahmoud <alyamahmoud@gmail.com> > wrote: > > Dear Group > > > > I would like to find if the genes of two different pathways are > correlated > > or anti-correlated or no correlation at all. The number of genes in the > two > > pathways are different, that's why a simple scatter plot will not be > > effective. Is there a simple way I can do this ? > > > > Thank you very much > > Alyaa Mahmoud > > > > Jr Computational Biologist > > Biology Department > > American University in Cairo, Egypt > > alya.mahmoud@aucegypt.edu > > +2 0100 17 31 389 > > > > -- > > Alyaa Mahmoud > > > > "Love all, trust a few, do wrong to none"- Shakespeare > > > > [[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 > > > > -- > Dr. Paul Geeleher > School of Mathematics, Statistics and Applied Mathematics > National University of Ireland > Galway > Ireland > -- > www.bioinformaticstutorials.com > -- Alyaa Mahmoud "Love all, trust a few, do wrong to none"- Shakespeare [[alternative HTML version deleted]]