FDist2 (datacal)

FDist2
documentation

A program to detect loci that might be under selection in samples from structured populations.

• Linux
• DOS

• Microsat
• DNA
• Standard (multi-allelic marker)

• consists of 6 lines:
  • Total number of demes (100 max)
  • No of populations sampled (must be less than or equal to total number of demes)
  • Expected Fst for infinite allele, infinite island model
  • Sample size (assumed the same in all populations)
  • Indicator - 1 for stepwise mutations; 0 for infinite alleles
  • No of realizations (loci)

100
15
0.17
50
0
20000

• 1/0 indicator: alleles by rows in data matrix (1), or pops by rows (0).
• No of pops
• no of loci
• no of alleles at locus 1
• matrix of data at locus 1 either with each row corresponding to the same allele or to the same population
• no of alleles at locus 2
• matrix…
• etc.
• The data matrices can contain populations for which a locus was not genotyped, these should be indicated by zero entries

0
15
2

3
4 76 0 
45 115 0 
109 11 0 
120 0 0 
0 0 0 
0 0 0 
0 0 0 
0 0 0 
13 67 0 
47 65 0 
0 0 0 
0 0 0 
0 74 6 
7 64 9 
26 74 0 

3
4 23 53 
0 38 122 
0 72 48 
0 57 63 
0 0 0 
0 0 0 
0 0 0 
0 0 0 
0 0 80 
0 0 112 
0 0 0 
0 0 0 
0 0 80 
0 8 72 
0 16 84 

• Beaumont and Nichols. Evaluating loci for use in the genetic analysis of population structure. (1996) Proc Roy. Soc. Lond. B. 263: 1619-1626
• Flint et al. Minisatellite mutational processes reduce F-st estimates. (1999) Human Genet 105: 567-576