Genotype assigned wrongly for needlr trio results even with same breakpoints

[riyasj327]

Hi,

thank you so much for this amazing tool!

I have been using needlr trio for my work and has been noticing discrepencies with genotype assignments of baby, mom and child. For eg: in one case there is an INS which is called by variant caller in child and mom but then in the needlr output it says it is denovo and not there in mom. The breakpoints of the INS are exactly same when I checked in the child and mom VCFs. Any idea what's going on?

thanks,
Riya