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CNVnator a tool for Copy Number Variation CNV discovery and genotyping from depth-of-coverage by mapped reads.

Abyzov A, Urban AE, Snyder M, Gerstein M. CNVnator: An approach to discover, genotype, and characterize typical and atypical CNVs from family and population genome sequencing. Genome Res. 2011 Jun;21(6):974-84.