Allelic series number estimation

[jcb...@gmail.com]

Hey there, 

In a multiparent population I´ve been estimating the peak marker allele effects with fit1 and blup=T. One gets the effect estimates and SE for each of the parental allele. Visually it seems that in some QTLs there are two alleles, in some 3 or 4. Anyone would have a suggestion of an analysis for estimating the number of alleles. Doing pairwise combinations?

[Karl Broman]

Consider the package TIMBR https://github.com/wesleycrouse/TIMBR

See Crouse et al (2020) https://doi.org/10.1534/genetics.120.303393

karl