On Thu, Jun 17, 2010 at 4:43 PM, Chao-Jen Wong <cwon2@fhcrc.org> wrote: > As for Illumina Infinium methylation data, you can use the methylumi > package to manipulate the data and perform quality control and > normalization. Subsequently use limma to do differential methylation > analysis. > > Just keep in mind that the data from the Illumina arrays are pretty non-normal, so some assumptions that come into play when using a parametric testing method may be in question. Sean > On 06/16/10 19:22, Noemi Andor wrote: > > Hi, > > > > I need to parse some raw Methylation data from Illumina (Infinium) and > some copy number results (CGH, high amount of data). I would be grateful for > any useful information like which bioconducter packages to use, alternative > tools, normalization. > > > > thank's in advance, > > > > Noemi > > > > _______________________________________________ > > Bioconductor mailing list > > Bioconductor@stat.math.ethz.ch > > 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@fhcrc.org > > _______________________________________________ > Bioconductor mailing list > Bioconductor@stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: > http://news.gmane.org/gmane.science.biology.informatics.conductor > [[alternative HTML version deleted]]