I have been trying to analyze Illumina 450k Methylation data using lumi and everytime I start with Illumina's Final Report as the input. Is there a way to use the *normalized file (produced using lumimethyN) *as the starting point? As in, is there a way to save this normalized file as a mehylumiR object (or something similar) and later import it in R and carry out other analysis like sample plots, etc? Thanks Jess [[alternative HTML version deleted]]

Hi, Jasreet, Suppose x.lumi.n is the object returned by lumiMethyN or lumiMethyR or any lumuMethy related methods, i.e., > x.lumi.n <- lumiMethyN(blah blah ...) You can save this R object to an rda file: > save(x.lumi.n, file="x.lumi.n.rda") Next time when you want to work with x.lumi.n, just load the data to R session > load("x.lumi.n.rda") Chao-Jen ----- Original Message ----- From: "Jasreet" <jovialj86@gmail.com> To: bioconductor at r-project.org Sent: Wednesday, July 27, 2011 12:43:19 PM Subject: [BioC] export lumimethyN object?? I have been trying to analyze Illumina 450k Methylation data using lumi and everytime I start with Illumina's Final Report as the input. Is there a way to use the *normalized file (produced using lumimethyN) *as the starting point? As in, is there a way to save this normalized file as a mehylumiR object (or something similar) and later import it in R and carry out other analysis like sample plots, etc? Thanks Jess [[alternative HTML version deleted]] _______________________________________________ Bioconductor mailing list Bioconductor at r-project.org https://stat.ethz.ch/mailman/listinfo/bioconductor Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor -- Chao-Jen Wong Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Avenue N., M1-B514 PO Box 19024 Seattle, WA 98109 206.667.4485 cwon2 at fhcrc.org