The Batch CNV Tool
You use the Batch CNV Tool to load multiple sequence alignment projects that have been aligned to the same reference and compare the projects to each other for coverage levels in the ROIs.
 
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For detailed information about the Batch CNV Tool, including its advantages and how the tool calculates pileup coverage at each position in the targeted panel, see the NextGENe application note “BatchCNVAppNote” at http://softgenetics.com/appnotes.php.