It's been a couple of years since I looked at illumina 450k methylation data - I had a couple of questions:
1. Are there any recommended packages (e.g. minfi) that will do normalization, batch correction and cell composition adjustment?
2. Is there a method / function in a package (minfi or otherwise) that will do cell composition adjustment for saliva? I know that blood is implemented in minfi....
thanks for any help!