Dear All, Could somebody explain me how exactly odds ratio is calculated by hgCondOver in GOstats? Thank you in advance! Mikhail

Hi Mikhail, Mikhail Pachkov wrote: > Dear All, > > Could somebody explain me how exactly odds ratio is calculated by > hgCondOver in GOstats? No idea what hgCondOver is. However, the odds ratio is calculated the 'regular' way. Say you have a 2x2 table like this: inGO notInGo Sel N11 N12 NotSel N21 N22 Then the OR is calculated as (N11*N22)/(N21*N12). The only difference with a conditional or directional analysis is how you calculate the universe or decide what is differentially expressed. Best, Jim > > Thank you in advance! > > Mikhail > > _______________________________________________ > 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 -- James W. MacDonald, M.S. Biostatistician Affymetrix and cDNA Microarray Core University of Michigan Cancer Center 1500 E. Medical Center Drive 7410 CCGC Ann Arbor MI 48109 734-647-5623