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=FSTAT=
STAT estimates and tests gene diversities and differentiation statistics from codominant genetic markers. It computes both Nei and Weir & Cockerham families of estimators of gene diversities and F-statistics, and tests them using randomisation methods. Jackknife and Bootstrap confidence intervals are also provided. The windows version also estimates statistics developed for the stepwise mutation model (Rst and the like)
=DATA type=
* SSR
* Standard (multi-allelic markers)
=Input=
* named FILENAME.DAT
* total number of individuals in the data set needs to be less than 20’000
* first line: contains 4 numbers separated by any number of spaces:
** number of samples, np (‹=200)
** number of loci, nl (‹=100)
** highest number used to label an allele, nu (‹=999)
** a 1 if the code for alleles is a one digit number (1-9), a 2 if code for alleles is a 2 digit number (01-99) or a 3 if code for alleles is a 3 digit number (001-999)
* followed by nl lines:
** each containing the name of a locus, in the order they will appear in the rest of the file
** On line nl+2, a series of numbers as follow: 1 0102 0103 0101 0203 0 0303
*** first number: identifies the sample to which the individual belongs
*** second: the genotype of the individual at the first locus, coded with a 2 digits number for each allele
*** third: the genotype at the second locus, until locus nl is entered (in the example above, nl=6)
* Missing genotypes are encoded with 0 (0001 or 0100 are not a valid format, so both alleles at a locus have to be known, otherwise, the genotype is considered as missing)
* no empty lines are needed between samples
* number of spaces between genotypes can be anything
* Numbering of samples need not be sequential
* the number of samples np needs to be the same as the largest sample identifier
* Samples need not to be ordered
* nu needs to be equal to the largest code given to an allele (even if there are less than nu alleles)