Population genetic data analysis with R (haploid data only!) R-code by Silke Werth |
| Population-genetic measures (list of references in the documentation): | ||
| Nei's minimum genetic distance Dm (Takezaki & Nei 1996) | ||
| Nei's Da distance (Takezaki & Nei 1996) | ||
| Average population homozygosity J (Takezaki & Nei 1996) | ||
| Latter's Fst (Takezaki & Nei 1996) | ||
| Nei's unbiased gene diversity He (Nei 1978) | ||
| Cramer's V2 (Agresti 1984) | ||
| Tschuproff contingency coefficient T (Legendre & Legendre 1998) | ||
| Minimum number of colonisation events C, percentage of multilocus genotypes M, number of multilocus genotypes G | ||
| To be able to run the code on these pages, first download R from CRAN. | ||
| Get an introduction to R here | ||
| * Documentation of all files and formulae on this page | ||
| * Test data set with microsatellites data for six loci in Lobaria pulmonaria download | ||
| * Nei's minimum genetic distance: a) function source-code for R b) how to use this function | ||
| * Nei's unbiased gene diversity H: a) function source-code b) how to use this function | ||
| * Linkage disequilibrium R-code | ||
| * Resampling function source-code | ||
| * Calculating C, G and M R-code | ||
| * Diploidise haploid genotype data source-code, example code |