Chap 3 - Coalescence Theory
Basic concept of coalescence [NS 03-01]

Coalescence of two individuals to an MRCA [NS 03-02]

Coalescence of multiple individuals to an MRCA [NS 03-05]

Coalescence of all individuals to an MRCA [NS 03-05smc]

Math of coalescence: Marbles, SNPs, & taxi cabs

Components of a coalescence tree [NS 03-06]

DNA sequence variation within a population: an example [NS_03-DNA_data smc] HOMEWORK
                                                         Tajima's estimator π [NS_03-Eqn 3.5]

MRCAs of individuals versus populations [NS 03-07]

Site Frequency Spectrum (SFS) model of variation [NS 03-08]
        SFS versus Folded SFS
SFS Model, infinite alleles model [NS 03-09]

MRCA expectations for expanding, stationary, & decreasing populations [NS 03-10]

HOMEWORK DNA sequence variation in eight primates; distance matrix; Coalescent Tree

                          DNA sequence variation in eight Atlantic Cod
Figures from Nielsen & Slatkin (2013); Text material © 2022 by Steven M. Carr