What affects the detection of CNVs？

[fjptwenger]

There is a significant difference in depth between the two samples in this interval, why is it the similar data in the results?

[etal]

Samples are normalized by total sequencing coverage, so if sample1 had higher coverage overall, the log2 copy ratio in that area of chr5 could still be similar, in this case close to the genome-wide average (log2 ratio near 0.0).