Genotype

[priyambial123]

Hello,

I read other FAQ posted on genotype. Sorry, but I wanted to make sure if I understood this correct. In my data, all the CNV calls had 0/1 as genotype. Could you please explain if this is an issue or something has to be changed before running the analysis

Thank you

Priya

[ctsa]

Thanks Priya,

I don't think there are immediate plans to change this. The current genotype values are not ideal but we probably won't disrupt the interface to HiFiCNV for this item alone. Since the current GTs are essentially just a constant, you could either delete them or substitute your own preferred mapping from CN without loss of information.