Data and R code supporting "Uncovering state-dependent relationships in shallow lakes using Bayesian latent variable regression"

Vitense, Kelsey
Hanson, Mark A
Herwig, Brian R
Zimmer, Kyle D
Fieberg, John R
2017-10-03
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https://doi.org/10.13020/D6408P
 https://hdl.handle.net/11299/190408
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2009
2011

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2015

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Title

Data and R code supporting "Uncovering state-dependent relationships in shallow lakes using Bayesian latent variable regression"

Published Date

2017-10-03

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Author Contact

Vitense, Kelsey
viten003@umn.edu

Type

Dataset
Field Study Data
Programming Software Code
Simulation Data

Abstract

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.

Description

Detailed descriptions for each of the files can be found in Readme.txt. The R Markdown, data, and script files can be opened using the R user interface, RStudio (RStudio Team 2015). Once all files are downloaded to a single directory, double-click on 'BLR_data_and_Code.Rproj' to open up a new RStudio window, and the working directory will automatically be set to the folder where the project files are located. The rest of the files can be opened from RStudio.

Referenced by

Vitense, K. Hanson, M.A., Herwig, B.R., Zimmer, K.D., & Fieberg, J. (2017). Uncovering state-dependent relationships in shallow lakes using Bayesian latent variable regression. Ecological Applications, 28(2), 309-322.
https://doi.org/10.1002/eap.1645

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Attribution-NonCommercial-ShareAlike 3.0 United States
 http://creativecommons.org/licenses/by-nc-sa/3.0/us/

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Data Repository for U of M (DRUM)

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Suggested citation

Vitense, Kelsey; Hanson, Mark A; Herwig, Brian R; Zimmer, Kyle D; Fieberg, John R. (2017). Data and R code supporting "Uncovering state-dependent relationships in shallow lakes using Bayesian latent variable regression". Retrieved from the Data Repository for the University of Minnesota (DRUM), https://doi.org/10.13020/D6408P.

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Description
Size
Readme.txt
Detailed file descriptions
(8.53 KB)

BLR_data_and_Code.Rproj
R project file
(218 B)

DNR_Data.csv
Shallow lake data
(10 KB)

BLRapplied_MDNRdata_SingleYear.Rmd
R code to analyze a single year of shallow lake data
(17.22 KB)

BLRapplied_MDNRdata_SingleYear.html
Output for a single year of shallow lake data
(1.01 MB)

DNR_JAGSout2010_10mil_2400thin.rds
Fitted BLR model for year 2010
(43.09 MB)

DNR_JAGSout2010_1mil_240thin_LOO_LINEAR.rds
Fitted linear model for year 2010
(27.44 MB)

BLRapplied_MDNRdata_randomLogist.Rmd
R code for BLR model with random logistic intercepts
(15.44 KB)

BLRapplied_MDNRdata_randomLogist.html
Output for BLR model with random logistic intercepts
(989.88 KB)

DNR_randomLogist_JAGSout_1mil_240thin_LOO.rds
Fitted BLR model with random logistic intercepts
(151.17 MB)

BLRapplied_MDNRdata_randomIntLogistThresh.Rmd
R code for BLR model with random logistic intercepts, random TP/Chla intercepts, random TP thresholds
(18.11 KB)

BLRapplied_MDNRdata_randomIntLogistThresh.html
Output for BLR model with random logistic intercepts, random TP/Chla intercepts, random TP thresholds
(1008.12 KB)

DNR_randomIntLogistThresh_JAGSout_1mil_240thin_LOO.rds
Fitted BLR model with random logistic intercepts, random TP/Chla intercepts, random TP thresholds
(227.35 MB)

Run_Sim_Study.R
R code to run simulation study
(26.48 KB)

SimDatAdd_2sig.R
R code with function to create simulated datasets
(8.74 KB)

TP_equilibria.csv
Steady state values for simulation model
(236.4 KB)

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