Browsing by Author "Fieberg, John R"

Now showing 1 - 20 of 25
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    Data and R code supporting "A hidden Markov model for ecosystems exhibiting alternative stable states"
    (2021-01-20) Vitense, Kelsey; Hanson, Mark A; Herwig, Brian R; Zimmer, Kyle D; Fieberg, John R; viten003@umn.edu; Vitense, Kelsey
    This repository contains the data and R code used to conduct the analyses in the article "Using hidden Markov models to inform conservation and management strategies in ecosystems exhibiting alternative stable states" in Journal of Applied Ecology.
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    Data and R code supporting "Uncovering state-dependent relationships in shallow lakes using Bayesian latent variable regression"
    (2017-10-03) Vitense, Kelsey; Hanson, Mark A; Herwig, Brian R; Zimmer, Kyle D; Fieberg, John R; viten003@umn.edu; Vitense, Kelsey
    This repository contains the data and R code used to conduct the analyses in the article "Uncovering state-dependent relationships in shallow lakes using Bayesian latent variable regression" in Ecological Applications.
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    Data and R code supporting: Circular-Linear Copulae for Animal Movement Data
    (2021-07-16) Hodel, Florian; Fieberg, John R; Jfieberg@umn.edu; Fieberg, John R
    This repository contains data and R code (along with associated output from running the code) for fitting circular-linear copula to animal location data, supporting results reported in: Hodel, F. and J. Fieberg. Circular-Linear Copulae for Animal Movement Data. https://www.biorxiv.org/content/10.1101/2021.07.14.452404v1.full.pdf
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    Data and R Code Supporting: Juvenile Sandhill Cranes Exhibit Wider Ranging and More Exploratory Movements Than Adults During the Breeding Season
    (2018-09-27) Wolfson, David, W; Fieberg, John R; Andersen, David E; wolfs064@umn.edu; Wolfson, David W
    These file contain the data and R code used in the analysis of the journal article: Juvenile Sandhill Crane Exhibit Wider Ranging and More Exploratory Movements Than Adults During the Breeding Season
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    Data and R code supporting: Using Piecewise Regression to Identify Biological Phenomena in Biotelemetry Datasets
    (2022-03-31) Wolfson, David W; Andersen, David E; Fieberg, John R; wolfs064@umn.edu; Wolfson, David W
    This repository contains data and R code (along with associated output from running the code) for fitting the example case studies reported in: Wolfson, D.W., D. E. Andersen, and J. R. Fieberg, Using Piecewise Regression to Identify Biological Phenomena in Biotelemetry Data. https://www.biorxiv.org/content/10.1101/2021.12.14.472652v1
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    Data and R code to support: Estimating densities of zebra mussels (Dreissena polymorpha) in early invasions using distance sampling
    (2019-01-18) Ferguson, Jake M; Fieberg, John R; McCartney, Michael A.; Blinick, Naomi S.; Schroeder, Leslie; jakeferg@umn.edu; Ferguson, Jake M; Minnesota Aquatic Invasive Species Research Center
    These files are the data and code needed to reproduce the analysis of the manuscript "Estimating densities of zebra mussels (Dreissena polymorpha) in early invasions using distance sampling". The data include spatial coordinates of transects used to survey for zebra mussels in Lake Sylvia and Lake Burgan in the summer of 2017, the counts of zebra mussels on each transect, and environmental covariates collected along transects and at each detection. We also provide the R code needed to process and analyze these data following the distance survey approach described in the manuscript. We provide code for a straightforward distance survey, which doesn't include any spatial covariate information, as well as a more computationally intensive analysis that does include spatial covariates.
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    Data for: Wolves alter the trajectory of forests by shaping the central-place foraging behavior of an ecosystem engineer
    (2023-04-12) Gable, Thomas D; Johnson-Bice, Sean M; Homkes, Austin T; Fieberg, John R; Bump, Joseph K; gable079@umn.edu; Gable, Thomas D; University of Minnesota Voyageurs Wolf Project
    Dataset for Gable et al. 2023 where the authors describe how wolves indirectly alter the trajectory of forests by constraining the distance that beavers, a central place forager and prolific ecosystem engineer, forage from water. Specifically, Gable et al. demonstrate wolves wait-in-ambush and kill beavers on longer feeding trails than would be expected based on the spatiotemporal availability of beavers. This pattern is driven by temporal dynamics of beaver foraging: beavers make more foraging trips and spend more time on land per trip on longer feeding trails that extend farther from water. As a result, beavers are more vulnerable on longer feeding trails than shorter ones. Wolf predation appears to be a selective evolutionary pressure propelled by consumptive and non-consumptive mechanisms that constrain the distance from water beavers forage, which in turn limits the area of forest around wetlands, lakes, and rivers beavers alter through foraging. Thus, wolves appear intricately linked to boreal forest dynamics by shaping beaver foraging behavior, a form of natural disturbance that alters the successional and ecological states of forests.
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    Data supporting "Predicting total phosphorus levels as indicators for shallow lake management"
    (2018-07-18) Vitense, Kelsey; Hanson, Mark A; Herwig, Brian R; Zimmer, Kyle D; Fieberg, John R; kelsey.vitense@gmail.com; Vitense, Kelsey
    This repository contains data supporting "Predicting total phosphorus levels as indicators for shallow lake management" in Ecological Indicators.
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    Data, R Code, and Output Supporting "An Historical Overview and Update of Wolf-Moose Interactions in Northeastern Minnesota"
    (2017-10-06) Fieberg, John R; Mech, L. David; Barber-Meyer, Shannon; jfieberg@umn.edu; Fieberg, John R
    These files contain data and R code (along with associated output from running the code) supporting all results reported in, "Mech, L. D., J. Fieberg, and S. Barber-Meyer. In press. An historical overview and update of wolf-moose interactions in Northeastern Minnesota. Wildlife Society Bulletin." In this paper, we explored relationships between wolf numbers, monitored in part of the Minnesota moose range, and moose calf:population and estimated log annual growth rates of moose in Northeast Minnesota.
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    Data, R Code, and Output Supporting: Evaluating species-specific responses to camera-trap survey designs
    (2020-12-14) Iannarilli, Fabiola; Erb, John; Arnold, Todd, W; Fieberg, John R; fabiola.iannarilli@gmail.com; Iannarilli, Fabiola
    These files contain data, R code and associated output supporting results presented in "Iannarilli, F., Erb, J., Arnold, T. W., and Fieberg, J. R. (2020). Evaluating species-specific responses to camera-trap survey designs. Wildlife Biology". In this paper, we assess species-specific responses by ten medium-to-large North-American carnivores to different survey design strategies commonly applied in camera-trap studies. Data were collected in northern Minnesota, USA, between 2016 and 2018 (23 337 active trap-days). We compared responses to: 1) two different survey-design frameworks (random- versus road-based), 2) two different lure types (salmon oil versus fatty acid scent oil), 3) two different placement strategies (completely random versus randomly-selected sites with feature-based placement), 4) survey timing (spring versus fall) and 5) temporal trends in daily encounter probabilities. Our results show that even species morphologically and taxonomically similar respond differently to survey-design strategies, and, thus, species-specific responses to design choices should be carefully considered in camera trap studies focused on multiple species.
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    Data, R Code, and Output Supporting: Range Overlap between Mid-Continent and Eastern Sandhill Cranes revealed by GPS-tracking
    (2017-05-30) Wolfson, David W; Fieberg, John R; Lawrence, Jeff S; Cooper, Tom R; Andersen, David E; wolfs064@umn.edu; Wolfson, David W
    This collection of files provide data, R code, and associated output supporting the article "Range Overlap between Mid-Continent and Eastern Sandhill Cranes revealed by GPS-tracking" in Wildlife Society Bulletin. We provide all necessary materials to reproduce the analysis of staging area overlap among GPS-marked Sandhill Cranes in Minnesota for the periods of August 1-October 1, 2015 and 2016. We captured and attached Global Positioning System-Global System for Mobile Communications (GPS-GSM) transmitters to 50 cranes in central Minnesota.
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    Data, R Code, and Output Supporting: Using lorelograms to measure and model correlation in binary data: Applications to ecological studies
    (2019-09-25) Iannarilli, Fabiola; Arnold, Todd W; Erb, John; Fieberg, John R; ianna014@umn.edu; Iannarilli, Fabiola
    These files contain data, R code and associated output supporting results presented in “Iannarilli, F. , Arnold, T. W., Erb, J. and Fieberg, J. R. (2019). Using lorelograms to measure and model correlation in binary data: Applications to ecological studies. Methods Ecol Evol.”. In this paper, we introduce in the ecological literature the lorelogram, a statistical tool for quantifying correlation patterns in binary data, with novel applications to species distributional and camera-trap studies. We demonstrate the usefulness of the lorelogram via several motivating examples illustrating its use a) as a data-based method for objectively determining space- or time-to-independence between subsequent detections; and b) for describing correlation and behavioural patterns at different time scales, including short-time scales (e.g., minutes) common to camera trap data. This information can then be used to formulate an appropriate statistical modelling framework that allows researchers to explore effects of additional covariates (at different scales), while properly accounting for correlation.
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    Growth Rates and Variances of Unexploited Wolf Populations in Dynamic Equilibria: Data, R Code, and Supporting Results
    (2014-07-18) Fieberg, John R; Mech, David; jfieberg@umn.edu; Fieberg, John R
    These files contain data and R code (along with associated output from running the code) supporting all results reported in: Mech, D. and J. Fieberg. 2014. Growth Rates and Variances of Unexploited Wolf Populations in Dynamic Equilibria. Wildlife Society Bulletin. In Mech and Fieberg (2014), we analyzed natural, long-term, wolf-population-density trajectories totaling 130 years of data from three areas: Isle Royale National Park in Lake Superior, Michigan; the east-central Superior National Forest in northeastern Minnesota; and Denali National Park, Alaska. We fit density-independent and Ricker models to each time series, allowing for 3 different assumptions regarding observation error (no error, Poisson or Log-normal observation error). We suggest estimates of the population-dynamic parameters can serve as benchmarks for comparison with those calculated from other wolf populations repopulating other areas.
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    Home range overlap indices implemented using kernel density estimators with plug-in smoothing parameters and Program R
    (2014-04-18) Fieberg, John R; jfieberg@umn.edu; Fieberg, John R
    This collection contains R code to implement the home range overlap indices evaluated by Fieberg and Kochanny (2005). These indices have been incorporated into the adehabitat package of Program R. However, the adehabitat package does not currently (as of April 2014) allow calculation of home ranges using the 'plug-in' method for choosing smoothing parameters when estimating home ranges using kernel density estimates. In addition, the code here allows one to use two separate smoothing parameters rather than a single parameter (as in the current version of adehabitat). An illustrative example is included that makes use wild boar location data contained in the adehabitat package. For references, see README.txt.
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    R Code and Data Supporting: A comparison of survey method efficiency for estimating densities of Zebra Mussels (Dreissena polymorpha)
    (2023-05-25) Ferguson, Jake M; Jimenez, Laura; Keyes, Aislyn A; Hilding, Austen; McCartney, Michael A; St. Clair, Katie; Johnson, Douglas H; Fieberg, John R; jfieberg@umn.edu; Fieberg, John R
    This repository contains data and R code supporting Ferguson et al. A comparison of survey method efficiency for estimating densities of Zebra Mussels (Dreissena polymorpha).
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    R Code and Output Supporting "Accounting for individual-specific variation in habitat-selection studies: Efficient estimation of mixed-effects models using Bayesian or frequentist computation"
    (2019-07-22) Muff, Stefanie; Signer, Johannes; Fieberg, John R; Jfieberg@umn.edu; Fieberg, John R
    This repository contains data and R code (along with associated output from running the code) for fitting resource-selection functions and step-selection functions with random effects, supporting all results reported in: Muff, S., Signer, J. and Fieberg, J., 2018. Accounting for individual-specific variation in habitat-selection studies: Efficient estimation of mixed-effects models using Bayesian or frequentist computation. bioRxiv, p.411801.
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    R Code and Output Supporting: A 'How-to' Guide for Interpreting Parameters in Habitat-Selection Analyses
    (2021-02-04) Fieberg, John R; Signer, Johannes; Smith, Brian; Avgar, Tal; Jfieberg@umn.edu; Fieberg, John
    This repository contains data and R code (along with associated output from running the code) supporting all results reported in: Fieberg, J., Signer, J. 2021. A 'How-to' Guide for Interpreting Parameters in Habitat-Selection Analyses. Journal of Animal Ecology. The code demonstrates how to correctly interpret parameters in habitat- and step-selection functions and methods for implementing integrated step-selection analyses using the amt package.
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    R Code and Output Supporting: Do Capture and Survey Methods Influence Whether Marked Animals are Representative of Unmarked Animals?
    (2015-03-27) Fieberg, John R; White, Kevin S; jfieberg@umn.edu; Fieberg, John R
    These files contain R code (along with associated output from running the code) supporting all results reported in "Do Capture and Survey Methods Influence Whether Marked Animals are Representative of Unmarked Animals?" in Wildlife Society Bulletin. The lead author wrote this code to analyze multi-year re-sighting data collected from moose (Alces alces) in Minnesota, elk (Cervus elaphus) in Washington, and mountain goats (Oreamnos americanus) in Washington and Alaska, to evaluate whether detection probabilities increased or decreased as a function of time since animals were captured.
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    R Code and Output Supporting: Resampling-Based Methods for Biologists
    (2020-03-02) Fieberg, John R; Vitense, Kelsey; Johnson, Douglas H; Jfieberg@umn.edu; Fieberg, John R
    This repository contains data, R code, and associated output from running R code supporting results reported in: Fieberg, J., K. Vitense, and D. H. Johnson 2020. Resampling-Based Methods for Biologists. PeerJ [In Revision]
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    R Code and Output Supporting: Computational reproducibility in The Wildlife Society's flagship journals
    (2019-06-05) ArchMiller, Althea A; Johnson, Andrew D; Nolan, Jane; Edwards, Margaret; Elliot, Lisa H; Ferguson, Jake M; Iannarilli, Fabiola; Velez, Juliana; Vitense, Kelsey; Johnson, Douglas H; Fieberg, John R; ALTHEA.ARCHMILLER@GMAIL.COM; ArchMiller, Althea A
    The goal of this study was to gauge the level of computational reproducibility, which is the ability to reach the same results using the same data and analysis methods, in the field of wildlife sciences. We randomly selected 80 papers published in the Journal of Wildlife Management and Wildlife Society Bulletin between 1 June 2016 and 1 June 2018. Of those for which we could obtain data, we attempted to reproduce their quantitative results using the original methods and data. The dataset shared in this repository is the de-identified results of our review, and the code provided here produces the results and figures in our published manuscript.