Mouse genetic background - Both parental strains are reference C57

[radiasso]

Hello,

I started going through the Mouse tutorial, but I got stuck already at the first Step for the preparation of the VCF file. It explains what to do with an F1 hybrid mouse, but our lab mice are all purely C57BL, so the two parental strains for a mouse are exactly the same.

Does this mean that I can't run the Numbat tool on my data?
In case I misunderstood, how am I supposed to proceed with two identical parental strains?

Thank you in advance!

[teng-gao]

Unfortunately Numbat analysis doesn't work for inbred (pure) strains, since they lack het SNPs.