ForGEM Creation of new zygotes

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FORGEM
  • random sampling for each independent locus allele 1 or 2, probability 0.5
  • recombination fraction, if distance is less than a given threshold
  • Pr = 0 full linking; Pr = 1 independent inheritage
  • double random sampling:
  • 1st determine recombination (yes/no)
  • 2nd determine chromosome


example


                    a                    b
 ______________________________________________________________________
 ______________________________________________________________________

                    A                    B

                          Pr =0.1

	ab= (1-0.1) x 0.5
	AB=(1-0.1)  x 0.5
	aB=   0.1   x 0.5
	Ab=   0.1   x 0.5
	------------------
	 	  2 x 0.5 = 1.0
  • required: recombination probabilities between loci (matrix, input: half-matrix)