Human-Plant model - exploration book
Andreas Angourakis & Jonàs Alcaina
Model overview
Ecological relationships and population dynamics
Population diversity
Coevolutionary dynamics
Parameters and variables
End-states
Output variables
Experimental design
1
Single runs
1.1
Fast coevolution (default)
1.2
No coevolution
1.3
Coevolution with early cultivation
1.4
Coevolution with early domestication
1.5
Cultivation without domestication
1.6
Coevolution with population “bleep”
1.7
Coevolution with population “boom”
1.8
Coevolution with long population “boom”
1.9
Semi-coevolution (stationary point)
1.10
Semi-coevolution (oscillations)
2
One parameter exploration
2.1
Full example (table+plot alternatives)
2.1.1
utility per capita
of
type n plants
to
humans (
\(\bar{U}_{P_{n}H}\)
):
2.2
Exploration on ‘default’ setting for each parameter:
2.2.1
Initial populations of humans and plants (
\(init_{H},\,init_{P}\)
)
2.2.2
Number of types of humans and plants (
\(n_{H},\,n_{P}\)
):
2.2.3
level of undirected variation in humans and plants (
\(v_{H},\,v_{P}\)
):
2.2.4
intrinsic growth rates for human and plant populations (
\(r_{H},\,r_{P}\)
):
2.2.5
utility per capita
of
type n plants
to
humans (
\(\bar{U}_{P_{n}H}\)
):
2.2.6
utility per capita
of
type n human
to
plants (
\(\bar{U}_{H_{n}P}\)
):
2.2.7
utility per capita
of
type 1 plants
to
humans (
\(\bar{U}_{P_{1}H}\)
):
2.2.8
utility per capita
of
type 1 humans
to
plants (
\(\bar{U}_{H_{1}P}\)
):
2.2.9
utility
of
other resources
to
humans of type 1 (
\(U_{bH_{1}}\)
):
2.2.10
utility
of
non-anthropic space
to
type 1 plants (
\(U_{bP_{1}}\)
):
2.2.11
utility
of
other resources
to
type n humans (
\(U_{bH_{n}}\)
):
2.2.12
utility
of
non-anthropic space
to
type n plants (
\(U_{bP_{n}}\)
):
2.2.13
maximum contiguous area to be used by plants (
\(max_area\)
):
2.3
Oscilations
3
Two parameter exploration
3.1
Full example
3.1.1
Utility per capita from type n humans and plants (
\(\bar{U}_{H_{n}P}\)
x
\(\bar{U}_{P_{n}H}\)
)
3.2
Exploration on ‘default’ setting for parameter pairs
3.2.1
Number of types of humans and plants (
\(n_{H}\)
x
\(n_{P}\)
)
3.2.2
Undirected variation in humans and plants (
\(v_{H}\)
x
\(v_{P}\)
)
3.2.3
Utility per capita from type 1 humans and plants (
\(\bar{U}_{H_{1}P}\)
x
\(\bar{U}_{P_{1}H}\)
)
3.2.4
Utility per capita from type n humans and plants (
\(\bar{U}_{H_{n}P}\)
x
\(\bar{U}_{P_{n}H}\)
)
3.2.5
Utility per capita from humans to plants (
\(\bar{U}_{H_{1}P}\)
x
\(\bar{U}_{H_{n}P}\)
)
3.2.6
Utility per capita from plants to humans (
\(\bar{U}_{P_{1}H}\)
x
\(\bar{U}_{P_{n}H}\)
)
3.2.7
Utility of other resources to type 1 humans and plants (
\(U_{bH_{1}}\)
x
\(U_{bP_{1}}\)
)
3.2.8
Utility of other resources to type n humans and plants (
\(U_{bH_{n}}\)
x
\(U_{bP_{n}}\)
)
3.2.9
Utility of other resources to humans (
\(U_{bH_{1}}\)
x
\(U_{bH_{n}}\)
)
3.2.10
Utility of other resources to plants (
\(U_{bP_{1}}\)
x
\(U_{bP_{n}}\)
)
3.2.11
Utility of other resources to type 1 humans and utility per capita of type 1 humans to plants (
\(U_{bH_{1}}\)
x
\(\bar{U}_{H_{1}P}\)
)
3.2.12
Utility of other resources to type 1 plants and utility per capita of type 1 plants to humans (
\(U_{bP_{1}}\)
x
\(\bar{U}_{P_{1}H}\)
)
3.2.13
Utility of other resources to type n humans and utility per capita of type n humans to plants (
\(U_{bH_{n}}\)
x
\(\bar{U}_{H_{n}P}\)
)
3.2.14
Utility of other resources to type n plants and utility per capita of type n plants to humans (
\(U_{bP_{n}}\)
x
\(\bar{U}_{P_{n}H}\)
)
4
Four parameter exploration
4.1
Number of types and undirected variation of humans and plants (
\(n_{H}\)
x
\(n_{P}\)
x
\(v_{H}\)
x
\(v_{P}\)
)
4.2
Utility per capita between humans and plants (
\(\bar{U}_{H_{1}P}\)
x
\(\bar{U}_{P_{1}H}\)
x
\(\bar{U}_{H_{n}P}\)
x
\(\bar{U}_{P_{n}H}\)
)
4.3
Utility from other resources to humans and plants (
\(U_{bH_{1}}\)
x
\(U_{bP_{1}}\)
x
\(U_{bH_{n}}\)
x
\(U_{bP_{n}}\)
)
4.4
Utility from other resources to humans and utility per capita of plants to humans (
\(U_{bH_{1}}\)
x
\(U_{bH_{n}}\)
x
\(\bar{U}_{P_{1}H}\)
x
\(\bar{U}_{P_{n}H}\)
)
4.5
Utility from other resources to plants and utility per capita of humans to plants (
\(U_{bP_{1}}\)
x
\(U_{bP_{n}}\)
x
\(\bar{U}_{H_{1}P}\)
x
\(\bar{U}_{H_{n}P}\)
)
4.6
Utility from other resources and utility per capita of type 1 humans and plants (
\(U_{bP_{1}}\)
x
\(U_{bH_{1}}\)
x
\(\bar{U}_{H_{1}P}\)
x
\(\bar{U}_{P_{1}H}\)
)
4.7
Utility from other resources and utility per capita of type n humans and plants (
\(U_{bP_{n}}\)
x
\(U_{bH_{n}}\)
x
\(\bar{U}_{H_{n}P}\)
x
\(\bar{U}_{P_{n}H}\)
)
4.8
Utility from other resources to type 1 humans and plants and utility per capita of type n humans and plants (
\(U_{bP_{1}}\)
x
\(U_{bH_{1}}\)
x
\(\bar{U}_{H_{n}P}\)
x
\(\bar{U}_{P_{n}H}\)
)
4.9
Utility from other resources to type n humans and plants and utility per capita of type 1 humans and plants (
\(U_{bP_{n}}\)
x
\(U_{bH_{n}}\)
x
\(\bar{U}_{H_{1}P}\)
x
\(\bar{U}_{P_{1}H}\)
)
5
Multiple parameter exploration
5.1
Sampling parameter values with Latin Hypercube Sampling (LHS)
5.2
Experiment overview
5.2.1
End-states
5.2.2
Trajectories
5.3
Random forest
5.3.1
Optimisation
5.3.2
Coevolution coefficients
5.3.3
Dependency coefficients
5.3.4
Timings
5.4
Visualisation of parameter effect
5.4.1
The effect on coevolution coefficients of the utility per capita of type n humans to plants (
\(\bar{U}_{H_{n}P}\)
)
5.4.2
All parameters
5.5
Parameter effect split by scenarios
5.5.1
Mutualistic human type gives more utility (
\(\bar{U}_{H_{n}P}> \bar{U}_{H_{1}P}\)
)
5.5.2
Mutualistic plant type gives more utility (
\(\bar{U}_{P_{n}H}> \bar{U}_{P_{1}H}\)
)
5.5.3
Mutualistic types (human and plant) give more utility (
\(\bar{U}_{H_{n}P}> \bar{U}_{H_{1}P}\)
AND
\(\bar{U}_{P_{n}H}> \bar{U}_{P_{1}H}\)
)
5.5.4
Mutualistic human type gets less utility from other resources (
\(U_{bH_{1}}>U_{bH_{n}}\)
)
5.5.5
Mutualistic plant type gets less utility from other resources (
\(U_{bP_{1}}>U_{bP_{n}}\)
)
5.5.6
Mutualistic types (human and plant) get less utility from other resources (
\(U_{bH_{1}}>U_{bH_{n}}\)
AND
\(U_{bP_{1}}>U_{bP_{n}}\)
)
6
References
Proudly published with bookdown
Human-Plant Coevolution (HPC) model
General exploration and parameter sensitivity analysis
5.4
Visualisation of parameter effect
5.4.1
The effect on coevolution coefficients of the utility per capita of type n humans to plants (
\(\bar{U}_{H_{n}P}\)
)
5.4.2
All parameters
Coevolution coefficients
Dependency coefficients
Timings
