TABLE 2

Notation

SymbolQuantity represented
nSample size
θMutation parameter (θ = 2Nμ)
NHaploid population size [or scaling constant for the neutral coalescent model (Nordborg 2001)]
μDNA sequence length times mutation rate per base pair per generation
ρRecombination parameter (ρ = 2Nr)
rDNA sequence length times recombination rate per base pair per generation
lDNA sequence length measured in base pairs
INo. of segments into which a recombination graph subdivides a DNA sequence
βExponential population growth parameter
γMigration parameter in the two-island model in which both populations each have size N/2 (γ = 2Nm)
mIn the symmetric two-island model, the fraction of individuals per population who migrate each generation
SNo. of segregating sites
MAbsolute frequency of the most frequent haplotype (that is, the number of sampled copies of the haplotype)
KNo. of haplotypes
HHaplotype heterozygosity (or haplotype diversity)
FHaplotype homozygosity (F = 1 − H)
GA univariate haplotype summary statistic in general (for example, M, K, or H)
WnWaiting time until n lineages coalesce to n − 1 lineages
LTotal length of a genealogy with n lineages
C = (C1, … , Cn)Haplotype frequency vector (or haplotype configuration)
CkNo. of distinct haplotypes with absolute frequency k
ekVector with kth coordinate 1 and other coordinates 0
δi,jKronecker's δ (1 if i = j, 0 otherwise)
  • Corresponding lowercase letters are used for particular instances of random variables.