Hi all,

I am relatively new to both R and the Bioconductor packages, so apologies if this is a naīve question.  I am using minfi to preprocess a small set (60 samples) of Illumina450k microarray data.  I have got to the point where I have a GenomicMethylSet, following the use of mapToGenome on a MethylSet to provide annotation, having excluded those probes without a defined position in the process.  I now wish to exclude probes from the sex chromosomes before using dmpFinder, and so I am seeking to subset the GenomicMethylSet to the autosomes only.  Despite days of searching and a number of references saying this is relatively straightforward, I have not yet had any success (have been exploring GenomicRanges).  Could someone please point me in the right direction with a code snippet or a reference?

Kind regards,

Toby.

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