Data and scripts from: How Modeling Frameworks Shape Archaeological Predictions

Zenodo (CERN European Organization for Nuclear Research)

Abstract

Dataset: This set of data and R computer codes were used to create the predictive models, figures, and develop analysis on the manuscript "How Modeling Frameworks Shape Archaeological Predictions" submitted to Journal of Computer Applications in Archaeology (JCAA) as a research article (DOI: ... to be added). Please read the materials and methods section on the manuscript, along with the data provided in the "Database" folder, to ensure reproducibility. IPP Predictive Model: The Inhomogeneous Poisson Process (IPP) model fit was performed using the fit_bayesPO function from the bayesPO R package (Moreira, 2021). This model was fitted using presence-only data and explicitly incorporated observability layers to account for spatial variation in survey effort and detection probability. Environmental predictors were included using quadratic and scaled terms. MaxEnt Predictive Model: The Maximum Entropy model was fitted using the maxent function from the dismo R package (Hijmans et al., 2010). This model used presence records together with background/pseudo-absence information derived from the study area. The model included quadratic terms and was used to estimate the relative suitability of archaeological occurrence across the landscape. Neural Network Predictive Model: The Neural Network model was fitted using the nnet R package (Ripley, 2009). This model used presence–absence/pseudo-absence data and included quadratic and scaled predictor terms. Observability layers were not supported in this modeling framework. Random Forest Predictive Model: The Random Forest model was fitted using the caret R package (Kuhn, 2007). This model used presence–absence/pseudo-absence data and linear predictor terms. Observability layers were not supported in this modeling framework. Dataset usage: It is free to use, but if you use this dataset in your work, please make sure to cite the repository and our paper properly. We also welcome users to invite us for collaboration.

Authors 15

1. Vinícius Peripato

   Instituto Nacional de Pesquisas Espaciais

   Affiliation as printed

   Division of Earth Observation and Geoinformatics (DIOTG), General Coordination of Earth Sciences (CG-CT), National Institute for Space Research (INPE), São José dos Campos, SP, Brazil

2. Laura Cristina Melo Teixeira

   Universidade Federal de Minas Gerais

   Affiliation as printed

   Department of Statistics, Federal University of Minas Gerais (UFMG), Belo Horizonte, MG, Brazil

3. Débora Joana Dutra

   Instituto Nacional de Pesquisas Espaciais

   Affiliation as printed

   Division of Earth Observation and Geoinformatics (DIOTG), General Coordination of Earth Sciences (CG-CT), National Institute for Space Research (INPE), São José dos Campos, SP, Brazil

4. Jonas Gregório de Souza

   Universitat Pompeu Fabra · Barcelona Supercomputing Center

   Affiliation as printed

   Computational Social Sciences and Humanities Laboratory, Barcelona Supercomputing Center, Centro Nacional de Supercomputación (BSC-CNS), Barcelona, Spain

   Department of Humanities, CASEs group, Universitat Pompeu Fabra, Barcelona, Spain

5. Dani Gamerman

   Universidade Federal de Minas Gerais · Universidade Federal do Rio de Janeiro

   Affiliation as printed

   Institute of Mathematics, Federal University of Rio de Janeiro (UFRJ), Rio de Janeiro, RJ, Brazil

   Department of Statistics, Federal University of Minas Gerais (UFMG), Belo Horizonte, MG, Brazil

6. Luiz E. O. C. Aragão

   Instituto Nacional de Pesquisas Espaciais

   Affiliation as printed

   Division of Earth Observation and Geoinformatics (DIOTG), General Coordination of Earth Sciences (CG-CT), National Institute for Space Research (INPE), São José dos Campos, SP, Brazil

7. Sebastian Fajardo Aachen Leiden Institute of Advanced Computer Science

   Leiden University

   Affiliation as printed

   Leiden Institute of Advanced Computer Science (LIACS), Leiden University, Leiden, The Netherlands

8. Adriana Silva

   Universidade Federal de Uberlândia

   Affiliation as printed

   Postgraduate Program in Geography (PPGEO), Institute of Geography (IG), Federal University of Uberlândia (UFU), Uberlândia, MG, Brazil

9. Guido Alberti Moreira

   Bavarian Nordic (Germany)

   Affiliation as printed

   Bavarian Nordic, Fraunhoferstr, Planegg, Germany

10. Carolina Levis

    Universidade Federal de Santa Catarina

    Affiliation as printed

    Postgraduate Program in Ecology, Federal University of Santa Catarina (UFSC), Florianópolis, SC, Brazil

11. Shaddai Heidgen

    Universitat Pompeu Fabra · University of Tübingen

    Affiliation as printed

    University of Tübingen, Arctic University Museum, Tromsø, Norway

    Department of Humanities, CASEs group, Universitat Pompeu Fabra, Barcelona, Spain

12. Marco Moderato

    Universitat Pompeu Fabra

    Affiliation as printed

    Department of Humanities, CASEs group, Universitat Pompeu Fabra, Barcelona, Spain

13. Seyedeh Soheila Shaabanzadeh

    Universitat Pompeu Fabra

    Affiliation as printed

    Department of Humanities, CASEs group, Universitat Pompeu Fabra, Barcelona, Spain

14. Javier Ruiz-Pérez

    Universitat Pompeu Fabra

    Affiliation as printed

    Department of Humanities, CASEs group, Universitat Pompeu Fabra, Barcelona, Spain

15. Marco Madella

    Institució Catalana de Recerca i Estudis Avançats · Universitat Pompeu Fabra · University of the Witwatersrand

    Affiliation as printed

    Department of Humanities, CASEs group, Universitat Pompeu Fabra, Barcelona, Spain

    Catalan Institution for Research and Advanced Studies (ICREA), Barcelona, Spain

    School of Geography, Archaeology, and Environmental Studies (GAES), University of the Witwatersrand, Johannesburg, South Africa