AMOVATo measure the apportionment of variance between pairs of populations, a method called AMOVA (Analysis of Molecular Variance) can be used (Roewer et al. 1996). In case of Y-chromosome profiles it considers the variance in the number of STR repeat units at DYS loci within and between populations. This method takes into account the molecular relationship of alleles, rather than just their frequency. The AMOVA method can be applied to measure the genetic distance between your population sample and reference samples from the YHRD.
- Upload a population sample from your files. This file should contain one haplotype per row and a header naming the columns. Only Microsoft Excel file will be accepted (example XLS sheet).
- check the file for correctness of locus names and alleles (please note that duplicated and intermediate alleles well be omitted from the calculation)
- check the mapping of columns from your file to database columns
- select from YHRD up to 9 population samples for AMOVA comparison
- Calculated pairwise ΦST and p-values as CSV file
- MDS as PDF file. The MDS calculation is based on Sammon mapping (Sammon 1969 and Venables & Ripley 2002), a non-metric MDS algorithm.
Last modified 1 year and 10 months ago by Sascha Willuweit