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

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