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5 - Processing Geospatial Data in R

A Primer

from Part I - GPS for Primatologists

Published online by Cambridge University Press:  29 January 2021

Francine L. Dolins
Affiliation:
University of Michigan, Dearborn
Christopher A. Shaffer
Affiliation:
Grand Valley State University, Michigan
Leila M. Porter
Affiliation:
Northern Illinois University
Jena R. Hickey
Affiliation:
University of Georgia
Nathan P. Nibbelink
Affiliation:
University of Georgia
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Summary

Geospatial data are inherently rich and complex, often consisting of large databases and complicated file structures. These data are frequently used to study primate resource use (e.g., Coleman & Hill 2014), social group formation and maintenance (e.g., Qi et al. 2014), and disease transmission (Springer et al. 2016), among many relevant topics. Geospatial data commonly take the form of movement tracks resulting from a researcher following an animal or group of animals and recording their location using handheld GPS units (e.g., Howard et al. 2015; Janmaat et al. 2013; Chapter 6). These movement tracks may also be recorded by GPS tags placed on individual animals (e.g., Patzelt et al. 2014; Chapters 3 and 4). Geospatial data may also result from researchers walking transects to survey primate occurrence (e.g., Araldi et al. 2014; Hicks et al. 2014). This type of data are composed of location coordinates (e.g., the track the primate or the researcher walked) and attribute data, such as time, observed behaviors, or unique identifiers for individuals. Raster and vector areal data (see the section Raster Data) that characterize landscapes of interest also make significant contributions to the study of primatology (e.g., Szantoi et al. 2017). Due to the richness and complexity of geospatial data, automated processing is advantageous, as it reduces processing time and reduces the chance of user error, compared to manual editing.

Type
Chapter
Information
Spatial Analysis in Field Primatology
Applying GIS at Varying Scales
, pp. 87 - 105
Publisher: Cambridge University Press
Print publication year: 2021

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References

Araldi, A., Barelli, C., Hodges, K., and Rovero, F. 2014. Density estimation of the endangered Udzungwa red colobus (Procolobus gordonorum) and other arboreal primates in the Udzungwa Mountains using systematic distance sampling. International Journal of Primatology 35(5): 941956.Google Scholar
Bivand, R., Keitt, T., and Rowlingson, B. 2016. rgdal: Bindings for the Geospatial Data Abstraction Library. R package version 1.2-4.Google Scholar
Burgman, M. A. and Fox, J. C. 2003. Bias in species range estimates from minimum convex polygons: implications for conservation and options for improved planning. Animal Conservation 6(1): 1928.Google Scholar
Calenge, C. 2006. The package adehabitat for the R software: a tool for the analysis of space and habitat use by animals. Ecological Modelling 197: 516519.Google Scholar
Coleman, B. T. and Hill, R. A. 2014. Living in a landscape of fear: the impact of predation, resource availability and habitat structure on primate range use. Animal Behaviour 88: 165173.Google Scholar
Crawley, M. J. 2007. The R Book. Wiley, Chichester.Google Scholar
Dalgaard, P. 2002. Introductory Statistics with R. Springer, New York.Google Scholar
Fleming, C. and Calabrese, J. 2017. ctmm: Continuous-Time Movement Modeling. R package version 0.3.5. Available at: https://CRAN.R-project.org/package=ctmm.Google Scholar
Fleming, C. H., Fagan, W. F., Mueller, T., et al. 2016. Estimating where and how animals travel: an optimal framework for path reconstruction from autocorrelated tracking data. Ecology. DOI: 10.1890/15-1607.Google Scholar
Getz, W. M. and Wilmers, C. C. 2004. A local nearest-neighbor convex-hull construction of home ranges and utilization distributions. Ecography 27: 489505.Google Scholar
Hengl, T., Roudier, P., Beaudette, D., and Pebesma, E. 2015. plotKML: scientific visualization of spatio-temporal data. Journal of Statistical Software 63(5): 125.Google Scholar
Hicks, T. C., Tranquilli, S., Kuehl, H., et al. 2014. Absence of evidence is not evidence of absence: discovery of a large, continuous population of Pan troglodytes schweinfurthii in the Central Uele region of northern DRC. Biological Conservation 171: 107113.Google Scholar
Hijmans, R. 2016a. geosphere: spherical trigonometry. R package version 1.5-5.Google Scholar
Hijmans, R. 2016b. raster: geographic data analysis and modeling. R package version 2.5-8.Google Scholar
Howard, A. M., Nibbelink, N. P., Madden, M., et al. 2015. Landscape influences on the natural and artificially manipulated movements of bearded capuchin monkeys. Animal Behaviour 106: 5970.Google Scholar
Janmaat, K. R. L., Ban, S. D., and Boesch, C. 2013. Chimpanzees use long-term spatial memory to monitor large fruit trees and remember feeding experiences across seasons. Animal Behaviour 86: 11831205.Google Scholar
Lo, C. P. and Yeung, A. K. 2007. Concepts and techniques of geographic information systems. Pearson Prentice Hall, Upper Saddle River, NJ.Google Scholar
Mohr, C. 1947. Table of equivalent populations of North American small mammals. American Midland Naturalist 37: 223249.Google Scholar
Patzelt, A., Kopp, G. H., Ndaod, I., et al. 2014. Male tolerance and male–male bonds in a multilevel primate society. PNAS 41: 1474014745.Google Scholar
Qi, X. G., Garber, P. A., Ji, W., et al. 2014. Satellite telemetry and social modeling offer new insights into the origin of primate multilevel societies. Nature 5(5296): DOI: 10.1038/ncomms6296.Google Scholar
R Core Team. 2016. R: A Language and Environment for Statistical Computing. R Foundation for Statistical Computing, Vienna.Google Scholar
R packages. 2015. Home page. Available at: http://r-pkgs.had.co.nz.Google Scholar
Rowlingson, B. and Diggle, P. 2016. splancs: spatial and space-time point pattern analysis. R package version 2.01-39. Available at: https://CRAN.R-project.org/package=splancs.Google Scholar
Seaman, D. E. and Powell, R. A. 1996. An evaluation of the accuracy of kernel density estimators for home range analysis. Ecology 77 (7): 20752085.Google Scholar
Springer, A., Mellmann, A., Fichtel, C., and Kappeler, P. M. 2016. Social structure and Escherichia coli sharing in a group-living wild primate, Verreaux’s sifaka. BMC Ecology 16(1): 6.Google Scholar
Szantoi, Z., Smith, S. E., Strona, G., Koh, L. P., and Wich, S. A. 2017. Mapping orangutan habitat and agricultural areas using Landsat OLI imagery augmented with unmanned aircraft system aerial photography. International Journal of Remote Sensing 38: 22312245.Google Scholar
Teetor, P. 2011. R Cookbook: Proven Recipes for Data Analysis, Statistics, and Graphics. O’Reilly Media, Inc., Beijing.Google Scholar

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