I’m very interested in using CopywriteR to detect copy number variation in target capture sequencing data. I’m looking to select a tool to implement in a high-throughput bioinformatic workflow. Therefore, I won’t be able to manually assess each output plot or IGV file. I was hoping to get some advice as to how I could access the results in a more streamlined way. I assume the per-chromosome plots are generated from data in the segment.Rdata file? Would I need to set a cutoff and determine amplified/depleted loci from that file?