Quantitative Genetics Experiments

Quantitative Genetics Experiments preview image

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Default-person Andrew McDevitt (Author)

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;extensions [table]
breed [rabbit rabbits]
breed [parents parent]
breed [trees tree]
breed [hawks hawk]
breed [offsprings offspring]
breed [wolves wolf]
breed [rabbit-holes rabbit-hole]
breed [carrots carrot]
breed [lakes lake]

globals[
  t1-mean
  t1-var
  t2-mean
  t2-var
  t3-mean
  t3-var
  t4-mean
  t4-var
]

parents-own[
  trait1-p
  trait2-p
  trait3-p
  trait4-p
  t1-parent
  t1-offspring
  t2-parent
  t2-offspring
  t3-parent
  t3-offspring
  t4-parent
  t4-offspring
]
offsprings-own [
  trait1-o
  trait2-o
  trait3-o
  trait4-o
]

to setup-population
  ca
  reset-ticks
  ask patches [; create unknown background
    set pcolor 4 - (random 3)
  ]
  create-parents 1000 [
    set trait1-p median (list 0 (random-normal 55 5) 100)
    set t1-parent median (list 30 (random-normal 55 5) 70)
    set t1-offspring (t1-parent * median (list 0 (random-normal .5 .02) 1))
    set trait2-p median (list 0 (random-normal 55 6) 100)
    set t2-parent median (list 30 (random-normal 55 5) 70)
    set t2-offspring (t2-parent * median (list 0 (random-normal .3 .02) 1))
    set trait3-p median (list 0 (random-normal 25 7) 100)
    set t3-parent median (list 0 (random-normal 25 7) 100)
    set t3-offspring (t3-parent * median (list 0 (random-normal .90 .02) 1))
    set trait4-p median (list 0 (random-normal 165 20) 260)
    set t4-parent median (list 0 (random-normal 165 20) 260)
    set t4-offspring median (list 0 (random-normal 165 20) 260)
    set shape "rabbit"
    setxy random-xcor random-ycor
    set color white

  ]
  set t1-mean "NA"
  set t1-var "NA"
  set t2-mean "NA"
  set t2-var "NA"
  set t3-mean "NA"
  set t3-var "NA"
  set t4-mean "NA"
  set t4-var "NA"
  tick
end 

to setup-habitat
  ask trees [die]
  ask hawks [die]
  ask wolves [die]
  ask rabbit-holes [die]
  ask carrots [die]
  ask parents[
    set hidden? TRUE
  ]
  ask offsprings[
    set hidden? TRUE
  ]

  ask patches [; create grass
    set pcolor 61 + grass-color + (random-float 0.4167 * grass-patchiness)
  ]
  ask n-of water patches [set pcolor sky]
  create-rabbit-holes n-rabbit-holes[
    set shape "circle"
    set size .3
    setxy random-xcor random-ycor
    set color black
  ]
  create-wolves n-wolves[
    set shape "wolf"
    set size 2
    setxy random-xcor random-ycor
    set color 2
  ]

  create-trees n-trees[
    set shape "tree pine"
    set color 51
    setxy random-xcor random-ycor
    set size 3
  ]
  create-carrots n-carrots[
    set shape "carrot"
    setxy random-xcor random-ycor
    set size 1.5
  ]
  create-hawks n-hawks[
    set shape "hawk"
    set size 1.5
    setxy random-xcor random-ycor
    set color brown
  ]
end 

to unhide-pop
  clear-output
  reset-ticks
  ask trees [die]
  ask hawks [die]
  ask wolves [die]
  ask offsprings [die]
  ask rabbit-holes [die]
  ask carrots [die]
  ask patches [; create unknown background
    set pcolor 4 - (random 3)
  ]
  ask parents [
    set hidden? FALSE
  ]
  tick
end 

to setup-offspring

  setup-habitat
  reset-ticks
  tick
  ask offsprings [die]
  ask parents[
    set hidden? TRUE
  ]
  ask offsprings[
    set hidden? FALSE
  ]

  create-offsprings 1000 [

   ;if (grass-color = 2) [set trait1-o median (list 0 (random-normal (t1-mean) (sqrt(12.5 + (12.5 * ((0.5 * (grass-patchiness / 6)) +(0.5 * (n-carrots / 50))))))) 100)]
    set trait1-o median (list 0 (random-normal (59 - grass-color * 2) (sqrt(12.5 + (12.5 * ((0.5 * (grass-patchiness / 6)) +(0.5 * (n-carrots / 50))))))) 100)
    if (n-wolves = 0) and (n-hawks = 0) [set trait2-o median (list 0 (random-normal 55 6) 100)]
    if (n-wolves = 0) and (n-hawks != 0) [set trait2-o median (list 20 (random-normal (55 + (15 * (n-hawks / 20))) 5.25) 75)]
    if (n-wolves != 0) and (n-hawks = 0) [set trait2-o median (list 35 (random-normal (55 - (30 * (n-wolves / 20))) 5.25) 85)]
    ;if (n-wolves != 0) and (n-hawks != 0) [set trait2-o ifelse-value (random-float 1 < 0.5) [median (list 20 (random-normal (55 - (35 * (n-wolves / 20))) 5) 100)] [ median (list 0 (random-normal (55 + (10 * (n-hawks / 20))) 5) 85)]]
    if (n-wolves != 0) and (n-hawks != 0) [set trait2-o median (list (20 + (0.5 * n-hawks)) (random-normal (55 - ((1.5 * n-wolves)- (0.75 * n-hawks))) (6 - (3 * (((2 * n-wolves) + n-hawks) / 40)))) (85 - (1 * n-wolves)))]
    if (n-wolves = 10) and (n-hawks = 20) [set trait2-o median (list (20 + (0.5 * n-hawks)) (random-normal 55 (6 * ((n-wolves / 20) / (n-hawks / 20)))) (85 - (1 * n-wolves)))]
    ;set trait3-o median (list 0 (random-normal (20 + (15 * (n-rabbit-holes / 100))) 7) 100)
    set trait3-o ifelse-value (random-float 1 < 0.5) [median (list 0 (random-normal (25 - (10 * (2 * n-rabbit-holes / 100))) 5) 100)] [ median (list 0 (random-normal (25 + (10 * (2 * n-rabbit-holes / 100))) 5) 100)]
    set trait4-o median (list 0 (random-normal (100 + water) 20) 260)
    set shape "rabbit"
    setxy random-xcor random-ycor
    set color white
  ]
  ifelse (grass-color = 2) [set t1-mean mean [trait1-p] of parents] [set t1-mean mean [trait1-o] of offsprings]
  ifelse (grass-patchiness = 6) and (n-carrots = 50) [set t1-var variance [trait1-p] of parents] [set t1-var variance [trait1-o] of offsprings]
  ifelse (n-wolves = 0) and (n-hawks = 0) [set t2-mean mean [trait2-p] of parents set t2-var variance [trait2-p] of parents] [set t2-mean mean [trait2-o] of offsprings set t2-var variance [trait2-o] of offsprings]
  ifelse (n-rabbit-holes = 25) [set t3-mean mean [trait3-p] of parents set t3-var variance [trait3-p] of parents] [set t3-mean mean [trait3-o] of offsprings set t3-var variance [trait3-o] of offsprings]
  ifelse (water = 65) [set t4-mean mean [trait4-p] of parents set t4-var variance [trait4-p] of parents] [set t4-mean mean [trait4-o] of offsprings set t4-var variance [trait4-o] of offsprings]
tick
end 

There are 5 versions of this model.

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Andrew McDevitt 5 months ago slider default Download this version
Andrew McDevitt 5 months ago graph updates Download this version
Andrew McDevitt 5 months ago graph updates Download this version
Andrew McDevitt 5 months ago table bug Download this version
Andrew McDevitt 5 months ago Initial upload Download this version

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