I am looking for differentially methylated probes and regions with age in a sample set that includes related individuals.
So far I have been using minfi and ChAMP to analyze my 450K and EPIC array data. I've really enjoyed using both of these excellent packages and am grateful to their developers!
But I am wondering if anyone knows of a way to incorporate relatedness (for example, a relatedness matrix) into the linear model used to identify DMPs or into the bumphunter analysis?
Thank you for any thoughts on this,