At 03:41 AM 15/09/2004, Fangxin Hong wrote: >Does anyone know how to model interaction (two-way ANOVA) using limma >package (lmFit)? There is an essay on this topic in the section "Special Designs" in the new Limma User's Guide, available from http://bioinf.wehi.edu.au/limma/usersguide.pdf. If you wait a few days, this new material will be in the Bioconductor version of limma. >Also, it seems that eBayes can be applied to other model fit object, like >'lm.series', 'gls.series' and 'rlm.series' beside 'lmFit'. Does anyone >use this before? lmFit() is just a front end to the other functions that you mention. All the functions fit linear models in a unified way. I recommend that you stick with lmFit(). Gordon >Thanks a lot! I am quite new to bioconductor... > >Fangxin > > >-- >Fangxin Hong, Ph.D. >Bioinformatics Specialist >Plant Biology Laboratory >The Salk Institute >10010 N. Torrey Pines Rd. >La Jolla, CA 92037 >E-mail: fhong@salk.edu