Hi all, reading carefully the documentation of VarScan CNA pipeline I noticed in step 4 the following suggestion:
If all of the data and segments are consistently above or below the neutral value (0.0), you can re-center the data points with VarScan copyCaller.
My data seem to belong in this category after plotting in R using DNAcopy package. All are consistently below 0.0. So, my question is how should I know how much I do need to re-center my data? I mean I can calculate this by eye, but how accurate can be that? Is there any proper way to calculate that?
Thank you in advance.