Computational Model Library

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Peer reviewed AgModel

Isaac Ullah | Published Friday, December 06, 2024

AgModel is an agent-based model of the forager-farmer transition. The model consists of a single software agent that, conceptually, can be thought of as a single hunter-gather community (i.e., a co-residential group that shares in subsistence activities and decision making). The agent has several characteristics, including a population of human foragers, intrinsic birth and death rates, an annual total energy need, and an available amount of foraging labor. The model assumes a central-place foraging strategy in a fixed territory for a two-resource economy: cereal grains and prey animals. The territory has a fixed number of patches, and a starting number of prey. While the model is not spatially explicit, it does assume some spatiality of resources by including search times.

Demographic and environmental components of the simulation occur and are updated at an annual temporal resolution, but foraging decisions are “event” based so that many such decisions will be made in each year. Thus, each new year, the foraging agent must undertake a series of optimal foraging decisions based on its current knowledge of the availability of cereals and prey animals. Other resources are not accounted for in the model directly, but can be assumed for by adjusting the total number of required annual energy intake that the foraging agent uses to calculate its cereal and prey animal foraging decisions. The agent proceeds to balance the net benefits of the chance of finding, processing, and consuming a prey animal, versus that of finding a cereal patch, and processing and consuming that cereal. These decisions continue until the annual kcal target is reached (balanced on the current human population). If the agent consumes all available resources in a given year, it may “starve”. Starvation will affect birth and death rates, as will foraging success, and so the population will increase or decrease according to a probabilistic function (perturbed by some stochasticity) and the agent’s foraging success or failure. The agent is also constrained by labor caps, set by the modeler at model initialization. If the agent expends its yearly budget of person-hours for hunting or foraging, then the agent can no longer do those activities that year, and it may starve.

Foragers choose to either expend their annual labor budget either hunting prey animals or harvesting cereal patches. If the agent chooses to harvest prey animals, they will expend energy searching for and processing prey animals. prey animals search times are density dependent, and the number of prey animals per encounter and handling times can be altered in the model parameterization (e.g. to increase the payoff per encounter). Prey animal populations are also subject to intrinsic birth and death rates with the addition of additional deaths caused by human predation. A small amount of prey animals may “migrate” into the territory each year. This prevents prey animals populations from complete decimation, but also may be used to model increased distances of logistic mobility (or, perhaps, even residential mobility within a larger territory).

The HUMan Impact on LANDscapes (HUMLAND) 2.0.0 is an enhanced version of HUMLAND 1.0.0, developed to track and quantify the intensity of various impacts on landscapes at a continental scale. The model is designed to identify the most influential factors in the transformation of interglacial vegetation, with a particular focus on the burning practices of hunter-gatherers. HUMLAND 2.0.0 incorporates a wide range of spatial datasets as both inputs and targets (expected modelling results) for simulations across Last Interglacial (~130,000–116,000 BP) and Early Holocene (~11,700–8,000 BP).

Peer reviewed Avian pest control: Yield outcome due to insectivorous birds, falconry, and integration of nest boxes.

David Jung | Published Monday, November 13, 2023 | Last modified Sunday, November 19, 2023

The model aims to simulate predator-prey relationships in an agricultural setting. The focus lies on avian communities and their effect on different pest organisms (here: pest birds, rodents, and arthropod pests). Since most case studies focused on the impact on arthropod pests (AP) alone, this model attempts to include effects on yield outcome. By incorporating three treatments with different factor levels (insectivorous bird species, falconry, nest box density) an experimental setup is given that allows for further statistical analysis to identify an optimal combination of the treatments.
In light of a global decline of birds, insects, and many other groups of organisms, alternative practices of pest management are heavily needed to reduce the input of pesticides. Avian pest control therefore poses an opportunity to bridge the disconnect between humans and nature by realizing ecosystem services and emphasizing sustainable social ecological systems.

The HUMan impact on LANDscapes (HUMLAND) model has been developed to track and quantify the intensity of different impacts on landscapes at the continental level. This agent-based model focuses on determining the most influential factors in the transformation of interglacial vegetation with a specific emphasis on burning organized by hunter-gatherers. HUMLAND integrates various spatial datasets as input and target for the agent-based model results. Additionally, the simulation incorporates recently obtained continental-scale estimations of fire return intervals and the speed of vegetation regrowth. The obtained results include maps of possible scenarios of modified landscapes in the past and quantification of the impact of each agent, including climate, humans, megafauna, and natural fires.

Peer reviewed NetLogo model of USA mass shootings

Smarzhevskiy Ivan | Published Tuesday, September 24, 2019 | Last modified Tuesday, April 14, 2020

Is the mass shooter a maniac or a relatively normal person in a state of great stress? According to the FBI report (Silver, J., Simons, A., & Craun, S. (2018). A Study of the Pre-Attack Behaviors of Active Shooters in the United States Between 2000 – 2013. Federal Bureau of Investigation, U.S. Department of Justice,Washington, D.C. 20535.), only 25% of the active shooters were known to have been diagnosed by a mental health professional with a mental illness of any kind prior to the offense.
The main objects of the model are the humans and the guns. The main factors influencing behavior are the population size, the number of people with mental disabilities (“psycho” in the model terminology) per 100,000 population, the total number of weapons (“guns”) in the population, the availability of guns for humans, the intensity of stressors affecting humans and the threshold level of stress, upon reaching which a person commits an act of mass shooting.
The key difference (in the model) between a normal person and a psycho is that a psycho accumulates stressors and, upon reaching a threshold level, commits an act of mass shooting. A normal person is exposed to stressors, but reaching the threshold level for killing occurs only when the simultaneous effect of stressors on him exceeds this level.
The population dynamics are determined by the following factors: average (normally distributed) life expectancy (“life_span” attribute of humans) and population growth with the percentage of newborns set by the value of the TickReprRatio% slider of the current population volume from 16 to 45 years old.Thus, one step of model time corresponds to a year.

Resilience of humans in the Upper Paleolithic could provide insights in how to defend against today’s environmental threats. Approximately 13,000 years ago, the Laacher See volcano located in present-day western Germany erupted cataclysmically. Archaeological evidence suggests that this is eruption – potentially against the background of a prolonged cold spell – led to considerable culture change, especially at some distance from the eruption (Riede, 2017). Spatially differentiated and ecologically mediated effects on contemporary social networks as well as social transmission effects mediated by demographic changes in the eruption’s wake have been proposed as factors that together may have led to, in particular, the loss of complex technologies such as the bow-and-arrow (Riede, 2014; Riede, 2009).

This model looks at the impact of the interaction between climate change trajectory and an extreme event, such as the Laacher See eruption, on the generational development of hunter-gatherer bands. Historic data is used to model the distribution and population dynamics of hunter-gatherer bands during these circumstances.

Peer reviewed Simple Coastal Exploitation in the American Samoa

Chloe Atwater | Published Wednesday, November 05, 2014

This model employs optimal foraging theory principles to generate predictions of which coastal habitats are exploited in climatically stable versus variable environments, using the American Samoa as a study area.

Leptospirosis is a neglected, bacterial zoonosis with worldwide distribution, primarily a disease of poverty. More than 200 pathogenic serovars of Leptospira bacteria exist, and a variety of species may act as reservoirs for these serovars. Human infection is the result of direct or indirect contact with Leptospira bacteria in the urine of infected animal hosts, primarily livestock, dogs, and rodents. There is increasing evidence that dogs and dog-adapted serovar Canicola play an important role in the burden of leptospirosis in humans in marginalized urban communities. What is needed is a more thorough understanding of the transmission dynamics of Leptospira in these marginalized urban communities, specifically the relative importance of dogs and rodents in the transmission of Leptospira to humans. This understanding will be vital for identifying meaningful intervention strategies.
One of the main objectives of MHMSLeptoDy is to elucidate transmission dynamics of host-adapted Leptospira strains in multi-host system. The model can also be used to evaluate alternate interventions aimed at reducing human infection risk in small-scale communities like urban slums.

GenoScope

Kristin Crouse | Published Wednesday, May 29, 2024

Identifying how organisms respond to environmental stressors remains of central importance as human impacts continue to shift the environmental conditions for countless species. Some mammals are able to mitigate these environmental stressors at the cellular level, but the mechanisms by which cells are able to do this and how these strategies vary among species is not well understood. At the cellular level, it is difficult to identify the temporal dynamics of the system through empirical data because fine-grained time course samples are both incomplete and limited by available resources. To help identify the mechanisms by which animal cells mitigate extreme environmental conditions, we propose an agent-based model to capture the dynamics of the system. In the model, agents are regulatory elements and genes, and are able to impact the behaviors of each other. Rather than imposing rules for these interactions among agents, we will begin with randomized sets of rules and calibrate the model based on empirical data of cellular responses to stress. We will apply a common-garden framework to cultured cells from 16 mammalian species, which will yield genomic data and measures of cell morphology and physiology when exposed to different levels of temperature, glucose, and oxygen. These species include humans, dolphins, bats, and camels, among others, which vary in how they respond to environmental stressors, offering a comparative approach for identifying mechanistic rules whereby cells achieve robustness to environmental stressors. For calibration of the model, we will iteratively select for rules that best lead to the emergent outcomes observed in the cellular assays. Our model is generalized for any species, any cell type, and any environmental stressor, offering many applications of the model beyond our study. This study will increase our understanding of how organisms mitigate environmental stressors at the cellular level such that we can better address how organisms are impacted by and respond to extreme environmental conditions.

The Friendship Field

Eva Timmer Chrisja van de Kieft | Published Thursday, May 26, 2022 | Last modified Tuesday, August 30, 2022

The Friendship Field model aims at modelling friendship formation based on three factors: Extraversion, Resemblance and Status, where social interaction is motivated by the Social Battery. Social Battery is one’s energy and motivation to engage in social contact. Since social contact is crucial for friendship formation, the model included Social Battery to affect social interactions. To our best knowledge, Social Battery is a yet unintroduced concept in research while it is a dynamic factor influencing the social interaction besides one’s characteristics. Extraverts’ Social Batteries charge while interacting and exhaust while being alone. Introverts’ Social Batteries charge while being alone and exhaust while interacting. The aim of the model is to illustrate the concept of Social Battery. Moreover, the Friendship Field shows patterns regarding Extraversion, Resemblance and Status including the mere-exposure effect and friendship by similarity. For the implementation of Status, Kemper’s status-power theory is used. The concept of Social Battery is also linked to Kemper’s theory on the organism as reference group. By running the model for a year (3 interactions moments per day), the friendship dynamics over time can be studied.

We presented the model at the Social Simulation Conference 2022.

Displaying 10 of 18 results humans clear search

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