Genotype notations for complete genomics data

Question

[MAPK]

I am working with whole genome data from complete genomics. I have genotype data where I am confused with this genotype notation, "1N". I know 01 is heterozygous, 00 is homozygous reference, 11 homozygous non-reference, but could not figure out what NN and 1N mean. Can someone please clarify?

[Cytosine]

Never seen anything like this before, sorry. Maybe similar to https://www.biostars.org/p/166758/?

Answer 1

[natasha.sernova]

The post below is about the names of individual genotypes.

69 Genomes Data Interpretation

" NN=NoCalls in both alleles, 1N=AlternativeAllele+NoCall "

Thanks to JC!

Some of old post could not be read yesterday, so I've added additional w...

https://wwww.biostars.org/p/54944/