A note on the rationale for estimating genealogical coancestry from molecular markers

Table 2 Features of the regression of genealogical coancestry f on estimators

Nb SNP	Nb replicates	Distribution of allelic frequencies known			Distribution of allelic frequencies estimated from the data
		a	b	R²	a	b	R²
p = 0.50*
100	1000	0.03	0.69	0.69	0.09	0.63	0.69
10000	50	0.00	0.99	1.00	0.09	0.91	1.00
Expected values		0.0	1.0		0.0	1.0
p_i ~ Beta(1, 1)**
100	1000	0.05	0.52	0.53	0.09	0.48	0.52
10000	50	0.00	0.99	1.00	0.09	0.90	0.99
Expected values		0.0	1.0		0.0	1.0

Intercept (a), slope (b) and coefficient of determination (R²), based on simulated data, when the distribution of allele frequencies in the founders is known or estimated from the data.
*Estimators (5) and (6) are used; **Estimators (9) and (10) are used

ISSN: 1297-9686