Senior Project Advisor
Anderson, Amy D.
Algorithms, Statistics, Alleles, Genotypes, Likelihood, Mathematics
In statistical genetics, there are several parameters of a dataset which a researcher might, but which are difficult to estimate in practice. In this paper, we will be focusing on allele frequencies, null alleles, inbreeding coefficients and, to a certain extent, beta values. A common technique for obtaining these values, developed by Amy Anderson and her co-workers, is to jointly estimate all of them using an EM-algorithm and the method of maximum likelihood. Despite this technique being effective in general, it is currently unable to deal with males at X-linked markers. The purpose of this project is to modify the existing algorithm to deal with males at X-linked markers, and conduct simulation testing to see the effect of these unusual markers and identify possible uses. In this paper, we work from the ground up to give readers a basic understanding of the statistics and genetics fundamentals required to grasp the EM-algorithm and subsequent modifications. We also include a discussion of the modifications, as well as the results of our simulations.
Kelly, Michael, "Do Men Matter? In Statistics, Probably" (2019). WWU Honors Program Senior Projects. 123.
Subjects - Topical (LCSH)
Sex-linkage (Genetics)--Mathematical models; Allelomorphism--Mathematical models; Imbreeding--Mathematical models;
student projects; term papers
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