Use of CNVnator in haploid organisms

[pabloangulo7]

Hello,

I would like to use this tool to examine the copy number variation in whole genome sequence, germline, haploid organism data. It would be possible? If so, which parameters should I modify?

Thanks

Pablo

[abyzov]

Hi, yes it should be possible. You don’t need to modify any parameters. But you may want to filter calls based on their RD, i.e., normalized RD for deletions must be close to 0, while normalized RD for duplication must be close to 2 or higher. Alexej Abyzov, Ph.D. Senior Associate Consultant, Associate Professor of Biomedical Informatics, Department of Quantitative Health Sciences, Center for Individualized Medicine, Mayo Clinic ----------------------------- Mayo Clinic, 200 1st street SW, Harwick 3-12 Rochester, MN 55905 www.abyzovlab.org<http://www.abyzovlab.org> tel: +1-(507)-538-0978