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. 2014 Feb 21;197(1):221–236. doi: 10.1534/genetics.113.156935

Table 1. Parameter definitions.

N Population size
τf Time of fixation of selected allele
t Time in generations
x(t) Frequency of the selected allele
h(t) Relative heterozygosity at the neutral locus among selected chromosomes
ql Minor allele frequency at site l
l0 Length of neutral region
L Flanking sequence length
π Nucleotide diversity, π=l=1l0(2ql(1ql)(n1)/n)
π0 Nucleotide diversity under neutrality
πN Nucleotide diversity in a population of size N
p(t) Probability of common ancestry at the neutral locus
n Number of sampled sequences
μ Mutation rate per generation per chromosome per base pair
θ = 4 Population-scaled mutation rate
s Selection coefficient
α = 2Ns Population-scaled selection strength
r Recombination rate per generation per chromosome per base pair
ρ = 4Nr Population-scaled recombination rate
rf Recombination fraction (probability of productive recombination, per generation per chromosome)
λ Rate of positively selected substitutions per site per generation
kh Rate of common ancestry induced by sweep events [see (4)]
Rc Total rate of common ancestry induced by sweep and coalescent events
Iα,s The integral 0upτf(u)du [see (4)]
Iα,s The integral 0upτf(u)du [see (14)]
I = 0.075 A constant approximating Iα,s