[BioC] bsseq and BSmooth with RRBS

[Alex Gutteridge]

I'm looking over the documentation for bsseq:

http://www.bioconductor.org/packages/2.11/bioc/html/bsseq.html

And the associated Genome Biology paper:

http://genomebiology.com/content/pdf/gb-2012-13-10-r83.pdf

 From what I can see the method should work on reduced representation 
bisulfite sequencing (RRBSeq) datasets as well as WGBSeq, though the 
documentation only mentions WGBSeq. The only issue I can see being the 
smoothing procedure which I thought might struggle in regions with 
scattered CpGs in the RRBSeq.

I will have data in hand shortly to test this myself, but was just 
curious if anyone on the list had run bsseq (successfully or otherwise) 
on RRBS data before?

-- 
Alex Gutteridge