GATK CNV Somatic Pair workflow is used for detecting copy number variants (CNVs) as well as allelic segments in a single sample.

Common Use Cases

The workflow denoises case sample alignment data against a panel of normals (PON), created by GATK CNV Panel Workflow, to obtain copy ratios and models segments from the copy ratios and allelic counts. The latter modeling incorporates data from a matched control sample. The same workflow steps apply to targeted exome and whole genome sequenci

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