Test repeat length consistency.

This function will test for consistency in the sense that all alleles are able to be represented as discrete units after division and rounding.

Usage

test_replen(gid, replen)

Arguments

gid: a genind or genclone object
replen: a numeric vector of repeat motif lengths.

Value

a logical vector indicating whether or not the repeat motif length is consistent.

Details

This function is modified from the version used in doi:10.5281/zenodo.13007 .

References

Zhian N. Kamvar, Meg M. Larsen, Alan M. Kanaskie, Everett M. Hansen, & Niklaus J. Grünwald. Sudden_Oak_Death_in_Oregon_Forests: Spatial and temporal population dynamics of the sudden oak death epidemic in Oregon Forests. ZENODO, doi:10.5281/zenodo.13007 , 2014.

Kamvar, Z. N., Larsen, M. M., Kanaskie, A. M., Hansen, E. M., & Grünwald, N. J. (2015). Spatial and temporal analysis of populations of the sudden oak death pathogen in Oregon forests. Phytopathology 105:982-989. doi: doi:10.1094/PHYTO-12-14-0350-FI

Ruzica Bruvo, Nicolaas K. Michiels, Thomas G. D'Souza, and Hinrich Schulenburg. A simple method for the calculation of microsatellite genotype distances irrespective of ploidy level. Molecular Ecology, 13(7):2101-2106, 2004.

Author

Zhian N. Kamvar

Examples

data(Pram)
(Pram_replen <- setNames(c(3, 2, 4, 4, 4), locNames(Pram)))
#>  PrMS6A1  Pr9C3A1 PrMS39A1 PrMS45A1 PrMS43A1 
#>        3        2        4        4        4 
test_replen(Pram, Pram_replen)
#>  PrMS6A1  Pr9C3A1 PrMS39A1 PrMS45A1 PrMS43A1 
#>     TRUE     TRUE    FALSE     TRUE     TRUE