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GENERAL INFORMATION
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1. Title of Dataset: 
R Code and Output Supporting:  Modeling individual variability in habitat selection and movement using integrated step-selection analyses


2. Author Information:
Name: Nilanjan Chatterjee
Affiliation: Department of Fisheries, Wildlife, and Conservation Biology, University of Minnesota-Twin Cities
Email: nchatter@umn.edu

Name: David Wolfson
Affiliation: Department of Fisheries, Wildlife, and Conservation Biology, University of Minnesota-Twin Cities
Email: wolfs064@umn.edu 

Name: Dongming Kim
Affiliation: Department of Fisheries, Wildlife, and Conservation Biology, University of Minnesota-Twin Cities
Email: kimx3725@umn.edu 

Name:Juliana Velez
Affiliation: Department of Fisheries, Wildlife, and Conservation Biology, University of Minnesota-Twin Cities
Email: julianavelezgomez@gmail.com

Name: Smith Freeman
Affiliation: Department of Fisheries, Wildlife, and Conservation Biology, University of Minnesota-Twin Cities
Email: freem850@umn.edu 

Name: Nathan M. Bacheler 
Affiliation: Southeast Fisheries Science Center, National Marine Fisheries Service, Beaufort, NC 28516, USA.
Email: nate.bacheler@noaa.gov

Name: Kyle Shertzer
Affiliation: Southeast Fisheries Science Center, National Marine Fisheries Service, Beaufort, NC 28516, USA.
Email: kyle.shertzer@noaa.gov
 
Name: J. Christopher Taylor
Affiliation: National Centers for Coastal Ocean Science, National Ocean Service, National Oceanic and Atmospheric Administration,Beaufort, NC 28516, U.S.
Email: chris.taylor@noaa.gov

Name: John R. Fieberg
Affiliation: Department of Fisheries, Wildlife, and Conservation Biology, University of Minnesota-Twin Cities
Email: jfieberg@umn.edu



3. Overview of the data and files: 

This repository contains R code and associated output supporting the results reported in:

Chatterjee, N., Wolfson, D., Kim, D., Velez, J., Freeman, S., Bacheler, N. M., Shertzer, K.,Taylor, J. C., and Fieberg, J. 2023.  Modeling individual variability in habitat selection and movement using integrated step-selection analyses. Methods in Ecology and Evolution. https://doi.org/10.1101/2023.07.31.551213

 


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SHARING/ACCESS INFORMATION
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1. Licenses/restrictions placed on the data and code: 

Attribution-NonCommercial-ShareAlike 3.0 United States


2. Links to publications that cite or use the data: 

Chatterjee, N., Wolfson, D., Kim, D., Velez, J., Freeman, S., Bacheler, N. M., Shertzer, K.,Taylor, J. C., and Fieberg, J. 2023.  Modeling individual variability in habitat selection and movement using integrated step-selection analyses. Methods in Ecology and Evolution.


3. Recommended citation for this archive:	

Chatterjee, N., Wolfson, D., Kim, D., Velez, J., Freeman, S., Bacheler, N. M., Shertzer, K.,Taylor, J. C., and Fieberg, J.  2023.  R Code and Output Supporting: Modeling individual variability in habitat selection and movement using integrated step-selection analyses. University of Minnesota Digital Conservancy. https://doi.org/10.13020/27hq-zx30



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FILE OVERVIEW
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1. A. Filename: Snapper_final_data_6min.rds 

Short description: Dataset used for the integrated step-selection analysis (465903X12)
column name:
 "id"     - id of the individual fish
 "burst_" - burst number for individual fish
 "sl_"    - Step-lengths between consecutive fixes
 "ta_"   - Relative turn-angle between three consecutive fixes
 "dt_"   - Time difference in mins
 "case_" - FALSE/TRUE if the step is available or used
 "log_sl_" - Log(step-length) mentioned earlier
 "cos_ta_"  - Cosine(relative turn-angle)
 "step_id" - Unique individualX step_id for the random effect modelling
 "reefS4"  - Reef habitat for the end of the step (0/1 for hardbottom or sand habitat)
 "reefE4"  - Reef habitat for the start of the step (0/1 for hardbottom or sand habitat)
 "newdist" - Distance from the closest reef



B. Filename: Move_simulation_final.html 
Short description: html file containing R code and output from running the codes; a tutorial demonstrating how to do the simulation modelling to understand  difference between  individual modelling vs mixed-effect models.

C. Filename: mixedssa_vignette.pdf
A vignette of the R package "mixedSSA" with the ISSA dataset of red snappers provided here.
 
D. Filename: Move_simulation_final_vignette.R
Short description: R file that containing the code underlying Move_simulation_final.html

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METHODOLOGICAL INFORMATION
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1. Methods: For complete methodological details, please refer to Chatterjee et al. (2023).

2. Instrument- or software-specific information needed to interpret the data:

Programs were written for Program R (R Core Team 2020) and full session information, including packages used, are provided at the bottom of each example.html file. 
 
Note: the input used for the integrated step-selection analysis can be found in the file "Snapper_final_data_6min.rds". The code and output for the simulation are provided in the "Move_simulation_final.html" file. The code to replicate the analysis using the empirical data can be found in the "mixedssa_vignette.pdf".