Entering edit mode
18 months ago
janayfox95
•
0
Hi everyone, I am working on analyzing some WGBS data but am struggling a bit to work with the objects that methylkit produces. Does anyone know how I can remove some chromosomes from the methylBaseDB object produced from the unite function? I want to remove sex chr. and unplaced scaffolds from downstream analysis. Also, if I want to extract CpG information from this object into a more workable format (such as a dataframe) that still contains sample ID info, does anyone know how to do this? I have tried the getData function but it crashes my R.
