AGENTS model is an agent-based computational framework designed to explore the socio-ecological and economic dynamics of agricultural production in the Byzantine Negev Highlands, with a focus on viticulture. It integrates historical, environmental, and social factors to simulate settlement sustainability, crop yields, and the impacts of varying climate conditions. The model is built in NetLogo and incorporates GIS-based topographical and hydrological data. Key features include the ability to assess climate impacts on crop profitability and settlement strategies, evaluate economic outputs of ancient vineyards, and simulate agent decision-making processes under diverse scenarios.

The AGENTS model is highly flexible, enabling users to simulate agricultural regimes with any two crops: one cash crop (a crop grown for profit, e.g., grapevines) and one staple crop (a crop grown for subsistence, e.g., wheat). While the default setup models viticulture and wheat cultivation in the Byzantine Negev Highlands, users can adapt the model to different environmental and socio-ecological contexts worldwide—both past and present.

Users can load external files to customize precipitation, evaporation, topography, and labor costs (measured as man-days per 0.1ha, converted to kg of wheat per model patch size area), and can also edit key parameters related to yield calculations. This includes modifying crop-specific yield formulas, soil and runoff indices, and any factors influencing crop performance. The model inherently simulates cash crops grown in floodplain regions and staple crops cultivated along riverbanks, providing a powerful tool to investigate societal resilience and responses to climate stressors across diverse environments.

…

This is NetLogo code that presents two alternative implementations of Correlated Random Walk (CRW):
- 1. drawing the turning angles from the uniform distribution, i.e. drawing the angle with the same probability from a certain given range;
- 2. drawing the turning angles from von Mises distribution.
The move lengths are drawn from the lognormal distribution with the specified parameters.

Correlated Random Walk is used to represent the movement of animal individuals in two-dimensional space. When modeled as CRW, the direction of movement at any time step is correlated with the direction of movement at the previous time step. Although originally used to describe the movement of insects, CRW was later shown to sufficiently well describe the empirical movement data of other animals, such as wild boars, caribous, sea stars.
…

This is a model of organizational behavior in the hierarchy in which personnel decisions are made.
The idea of the model is that the hierarchy, busy with operations, is described by such characteristics as structure (number and interrelation of positions) and material, filling these positions (persons with their individual performance). A particular hierarchy is under certain external pressure (performance level requirement) and is characterized by the internal state of the material (the distribution of the perceptions of others over the ensemble of persons).
The World of the model is a four-level hierarchical structure, consisting of shuff positions of the top manager (zero level of the hierarchy), first-level managers who are subordinate to the top manager, second-level managers (subordinate to the first-level managers) and positions of employees (the third level of the hierarchy). ) subordinated to the second-level managers. Such a hierarchy is a tree, i.e. each position, with the exception of the position of top manager, has a single boss.
Agents in the model are persons occupying the specified positions, the number of persons is set by the slider (HumansQty). Personas have some operational performance (harisma, an unfortunate attribute name left over from the first edition of the model)) and a sense of other personas’ own perceptions. Performance values are distributed over the ensemble of persons according to the normal law with some mean value and variance.
The value of perception by agents of each other is positive or negative (implemented in the model as numerical values equal to +1 and -1). The distribution of perceptions over an ensemble of persons is implemented as a random variable specified by the probability of negative perception, the value of which is set by the control elements of the model interface. The numerical value of the probability equal to 0 corresponds to the case in which all persons positively perceive each other (the numerical value of the random variable is equal to 1, which corresponds to the positive perception of the other person by the individual).
The hierarchy is occupied with operational activity, the degree of intensity of which is set by the external parameter Difficulty. The level of productivity of each manager OAIndex is equal to the level of productivity of the department he leads and is the ratio of the sum of productivity of employees subordinate to the head to the level of complexity of the work Difficulty. An increase in the numerical value of Difficulty leads to a decrease in the OAIndex for all subdivisions of the hierarchy. The managerial meaning of the OAIndex indicator is the percentage of completion of the load specified for the hierarchy as a whole, i.e. the ratio of the actual performance of the structural subdivisions of the hierarchy to the required performance, the level of which is specified by the value of the Difficulty parameter.
…

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.

The model is designed to simulate the behavior and decision-making processes of individuals (agents) in a social network. It aims to represent the changes in individual probability to take any action based on changes in attributes. The action is anything that can be reasonably influenced by the three influencing methods implemented in this model: peer pressure, social media, and state campaigns, and for which the user has a decision-making model. The model is implemented in the multi-agent programmable environment NetLogo 6.3.0.

A fisher directed management system was describeded by Hart (2021). It was proposed that fishers should only be allowed to exploit a resource if they collaborated in a resource management system for which they would own and be collectively responsible for. As part of the system fishers would need to follow the rules of exploitation set by the group and provide a central unit with data with which to monitor the fishery. Any fisher not following the rules would at first be fined but eventually expelled from the fishery if he/she continued to act selfishly. This version of the model establishes the dynamics of a fleet of vessels and controls overfishing by imposing fines on fishers whose income is low and who are tempted to keep fishing beyond the set quota which is established each year depending on the abundance of the fish stock. This version will later be elaborated to have interactions between the fishers including pressure to comply with the norms set by the group and which could lead to a stable management system.

Model of shifting cultivation. All parameters can be controlled by the user or the model can be run in adaptive mode, in which agents innovate and select parameters.

This model investigates the link between prescribed growth in body size, population dynamics and density dependence through population feedback on available resources.

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.

DARTS simulates food systems in which agents produce, consume and trade food. Here, food is a summary item that roughly corresponds to commodity food types (e.g. rice). No other food types are taken into account. Each food system (World) consists of its own distribution of agents, regions and connections between agents. Agents differ in their ability to produce food, earn off-farm income and trade food. The agents aim to satisfy their food requirements (which are fixed and equal across agents) by either their own food production or by food purchases. Each simulation step represents one month, in which agents can produce (if they have productive capacity and it is a harvest month for their region), earn off-farm income, trade food (both buy and sell) and consume food. We evaluate the performance of the food system by averaging the agents’ food satisfaction, which is defined as the ratio of the food consumed by each agent at the end of each month divided by her food requirement. At each step, any of the abovementioned attributes related to the agents’ ability to satisfy their food requirement can (temporarily) be shocked. These shocks include reducing the amount of food they produce, removing their ability to trade locally or internationally and reducing their cash savings. Food satisfaction is quantified (both immediately after the shock and in the year following the shock) to evaluate food security of a particular food system, both at the level of agent types (e.g. the urban poor and the rural poor) and at the systems level. Thus, the effects of shocks on food security can be related to the food system’s structure.