Data and code for 'Age structure of amphibian populations with endemic chytridiomycosis, across climatic regions with markedly different infection risk'

<p>This repository provides all data and R code from the analysis presented in the following paper:</p> <p>Turner, A., Heard, G., Hall, A., Wassens, S. (in review).&nbsp;Age structure of amphibian populations with endemic chytridiomycosis, across climatic regions with markedly different infection risk.</p> <p>The data are provided as a series of .csv files, R script and two zip folders of R packages (Surv_mod and VB_mod)</p> <p>1. <strong>Skeleto_dat_ready_Jan2021.csv</strong> Data from frog surveys conducted by Anna Turner</p> <p>2. <strong>Geoffs_data.csv</strong> Data from frog surveys conducted by Geoff Heard</p> <p>3. <strong>Environmental_variables_skeleto.csv</strong> Environmental data collected during surveys&nbsp;</p> <p>4. <strong>sk.dat_July21.csv</strong> Collated data from Anna and Geoff - created by &#39;Data_collation_for_analysis_2.R&#39; ready for analysis</p> <p>5.&nbsp;<strong>Variables_that_are_highly_correlated_with_each_other_season_wide.csv</strong> Testing for correlation</p> <p>6. <strong>Model_structure_skeleto_2.csv </strong>creates&nbsp;model structure for analysis</p> <p>7.&nbsp;<strong>Model_selection_statistics_June_21.csv&nbsp;</strong>Output from model</p> <p>R code is provided seperately for each of the following components:</p> <p>1. <strong>Data_collation_for_analysis_2.R</strong> Collating data from Anna and Geoffs datasets</p> <p>2. <strong>Skeleto_analysis_5.R - </strong>First uses regression modelling to explore factors correlated with variation in age</p> <p>&nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp;- Following Scheele et al. (2016) regression models with a poisson distribution</p> <p>&nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp;- Use bayesian non-linear regression to fit the Von Bertalanffy growth model to size-at-age data</p> <p>&nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp;- Plots male and female growth curves</p> <p>&nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp;- Uses catch curve approach to estimate survival from best fitting regression model following Scroggie&nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp;(2012) but with bayesian implementation</p>