Are there good benchmarking/validation tools for CNVs? By 'benchmarking/validation', I mean, you feed the tool a truth set and the CNVs called by a CNV caller, then the tool will output something like the sensitivity and specificity of the CNV caller.
It depends on the data you use. For WGS, check out the GiaB (https://www.nature.com/articles/s41587-020-0538-8.epdf) HG002 truth set. There are also tools: truvari, SVanalyzer that compare the vcfs and report Precision/Recall metrics.
For WES, panels, you can try ICR96 dataset (you will need to request): https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5473400/