Are there needs to perform imputation for genotype generated from WGS ?

Question

[hxlei613]

I know imputation is usually performed for genotypes from chips. What if these genotypes are from WGS ? It's true that WGS is expensive for a huge population. WHat about your opinions ?

Answer 1

[BioinfGuru]

This paper provides a method and a good discussion on this topic involving imputation to reduce cost of genotyping large cohorts.

Whole-genome characterization in pedigreed non-human primates using genotyping-by-sequencing (GBS) and imputation