I am new to analyzing array data and I am currently trying to analyze some 850k array data using minfi. I have loaded the IlluminaHumanMethylationEPICmanifest and IlluminaHumanMethylationEPICanno.ilm10b2.hg19. I am following this "recipe": A cross-package Bioconductor workflow for analysing methylation array data. The
read.metharray.exp() function works (and everything else down to the point of normalisation) and i manage to assign the right annotation. However, many downstream functions like
preprocessFunnorm() give me an error:
[preprocessQuantile] Mapping to genome. Error in `assayDataElement<-`(`*tmp*`, "Meth", validate = FALSE, value = c(471, : unused argument (validate = FALSE) In addition: Warning message: display list redraw incomplete
I cannot seem to figure out what the problem is, i have also tried to use the 450k annotation as well but it still does not work.