Package: hybridclock 0.1.1.9000

hybridclock: How Long Have Hybrids Been Forming? Hybrid Population Histories from Diagnostic Markers

Estimates the history of hybrid populations from diagnostic markers, with or without a genetic map: the average age of the hybrids, how long ago the rarer species' ancestry entered, the number of backcrosses, and whether pure animals of the rarer species are still arriving. Population samples of hybrid index and interspecies heterozygosity, as defined by Fitzpatrick (2012) <doi:10.1186/1471-2148-12-131>, are compared with forward simulations that include drift, small breeding groups, sibling mating and separate breeding pools, so that inbreeding is not mistaken for age. Estimates come from 'Cubist' models with split-conformal intervals. Recent hybrids are also classified individually, and the number of markers needed to detect backcrossed hybrids follows Boecklen and Howard (1997) <doi:10.1890/0012-9658(1997)078[2611:GAOHZN]2.0.CO;2>.

Authors:Paul A. Maier [aut, cre, cph]