Overlapping CNVs against NSPs
I have a data frame with some CNVs and I also have a VCF file with short variants (e.g. SNP) I want to filter and get the variants that overlap with the CNVs. Do I need to convert my CNVs into a bed format and then do interset (Bedtools) and then load the output bed file to get the SNPs? Or is there a more straightforward way to do this?
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