Allen

This is a seminar in a series of UW Library events associated with the UW "Common Book" program (http://www.washington.edu/uaa/commonbook/). This is the program under which all incoming UW freshman are given (and expected to read) a particular book, and this year it is a recent book on climate change, "Field Notes from a Catastrophe" by Elizabeth Kolbert. The list of Common Book events is at http://www.lib.washington.edu/commonbook/events.html.

Phylogenetic stochastic mapping is a method for reconstructing the history of trait changes on a phylogenetic tree relating species/organisms carrying the trait. State-of-the-art methods assume that the trait evolves according to a continuous-time Markov chain (CTMC) and work well for small state spaces such as the space of four DNA nucleotides.

Genetic similarity between organisms arises from segments of shared genome, which are said to be identical by descent (IBD). Modeling IBD in pedigrees forms the basis of classical linkage analysis and has been a fruitful method of statistical genetics. We examine methods for modeling IBD in more general settings where relationships among subjects are not known completely.

Genetic similarity between organisms arises from segments of shared genome, which are said to be identical by descent (IBD). Modeling IBD in pedigrees forms the basis of classical linkage analysis and has been a fruitful method of statistical genetics. We examine methods for modeling IBD in more general settings where relationships among subjects are not known completely.

Advisor: Martina Morris We address three aspects of statistical methodology in the application of Exponential family Random Graphs to modeling social network processes. The first is the topic of model degeneracy in ERGMs. We show this is a lack-of-fit problem -- a function of both the model specification and the observed data -- that can be diagnosed by exploiting the geometry of the model space. We propose new specifications based on nonlinear transformation of degenerate terms that are less vulnerable to degeneracy and retain the property of "locality" needed for interpretation.