corridoR - Migration Corridors and Genetic Range Shifts from Landscape Genetic Data
Models genetic connectivity along migration corridors and forecasts how it shifts under climate change, following Maier et al. (2022) <doi:10.1038/s41437-022-00561-x>. Least cost corridors are built from accumulated cost surfaces and used as weights to summarize raw environmental layers between sites; each group of environmental features can choose its own corridor bandwidth; and pairwise predictions of differentiation and directional migration are mapped back onto the landscape as magnitude and net-direction surfaces. Includes readers for common genotype formats (STRUCTURE, GENEPOP, VCF, GenAlEx, FSTAT and PLINK files, and 'adegenet' objects), pairwise fixation indices, and the directional differentiation of Sundqvist et al. (2016) <doi:10.1002/ece3.2096>.
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climate-changeconnectivityconservation-geneticscubistfstgene-flowlandscape-geneticsleast-cost-pathpopulation-geneticsrange-shifts
4.30 score 1 scriptshybridclock - 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>.
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admixtureage-estimationconservation-geneticscubistf1f2f3hiesthybrid-zoneshybridizationintrogressionjunctionsnewhybridspopulation-geneticssimulation
4.00 score