GT:CN ./1:inf

[jingydz]

Hi,
in some samples, I get the variation record is "chrM 1 CNVnator_dup_1 N . PASS END=17000;SVTYPE=DUP;SVLEN=17000;IMPRECISE;natorRD=inf;natorP1=0;natorP2=0;natorP3=0;natorP4=0;natorQ0=0.00908054 GT:CN ./1:inf".
When I use the bcftools software to merge, I get the error:
[W::vcf_parse_format] Extreme FORMAT/CN value encountered and set to missing at chrM:1
[E::vcf_parse_format] Invalid character 'i' in 'CN' FORMAT field at chrM:1

I wonder why the copy number is inf?

[abyzov]

Hi, do you have the original line in CNVnator format for this records? Having this line would facilitate understanding of what is happening. 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 7-91 Rochester, MN 55905 www.abyzovlab.org <http://www.abyzovlab.org>tel: +1-(507)-538-0978