Genepop format data
The genotype data in Genepop format can be used as an input data of Poptree2. Allele frequency data is calculated from it.
Population name: A popualation name can be specified by adding the name in the POP line.
If the name of a population is not specified, poptree2 automatically gives a name such as pop1, pop2, ... .
Allele name: Missing data is represented by the allele name that only consists of letter zero (e.g., 00, 000), as in Genepop. Otherwise, allele names do not have to consist of only numbers 0-9. However, if a user wishes to use Dmyu or Dsw, allle names should represent the number of repeats (not a fragment size in bp) at a microsatellite locus. (The repeat number does not have to be an integer.)
Genotype data : For a genotype data at a cell, if the number of letters is smaller than or equal to 3, the data is considered to be a haploid data. If the number of letters is larger than 3, the data is considered to be a diploid data, and so it should be an even number. Otherwise, it is considered as an error. The first half and the second half of the data are respectively regarded as an allele name.
Exclusion of locus data due to missing data: If the data for a locus are all missing data (e.g., 00, 000), then this locus is excluded from the computation. After exclusion of these loci, if a population has only missing data for a locus, it is considered as an error.
Number of populations:The number of populations should be larger than or equal to 3.