Long-term collapse in fruit availability threatens Central African forest megafauna

This repository contains all of the code used in Bush and Whytock et al. 2020. Data used in the analyses are available in .csv format from the University of Stirling's data repository (DataSTORRE: Stirling Online Repository for Research Data) at this link http://hdl.handle.net/11667/159

The directory structure is:

fruitPhenology # Analysis of tree reproduction and fruit availability
  |-figures # Figures output from the R scripts
  |-R # R scripts
  
bodyCondition # Analysis of trends in forest elephant body condition over time
  |-figures # Figures output from the R scripts
  |-R # R scripts
  
testScoring # Comparison between scorers using a standardised database of 200 photos
  |-data # Data in .csv format
  |-figures # Figures output from the R scripts
  |-R # R scripts
  
 shinyApp # The R Shiny App used to score elephant body condition. Minimum working version.
  |-data # Data in .csv format
  |-pages # Server and ui R scripts
    |-server
    |-ui
  |-www # Contains images to run the app locally
    |-refImages # Reference photos. b,d,f,h,j are from https://doi.org/10.1371/journal.pone.0093802
    |-sampleImages # 10 example photos
      |-complete # Contains image to show the user has scored all example photos