Pathogen-induced alterations in fine-scale movement behaviour predict impaired reproductive success

This R-Project contains the following code files (in folder R): 01_movement_data_cleaning: Code to clean the raw ATLAS tracking data 02_nestbox_data_cleaning: Code to clean nest box control sheets 03_pathogen_data_cleaning: Code to clean the laboratory results for blood parasites PCRs 04_ctmm_models: Code to prepare data, applying continuous time movement models (incl. model selection) on movement data. Moreover, track reconstruction is performed 05_Neural_Network: Code to perform Neural Networks for classification of behavioural states 06_behavioural classification_analyses: Code to analyse Neural Network output 07_HSF: Code for Habitat Selection Functions (HSF) 08_ISSF: : Code for integrated Step Selection Functions (iSSF) 09_breeding_success_HSF: Multivariate model to perform on HSF estimates 10_breeding_success_ISSF: Multivariate model to perform on iSSF estimates This repository contains the following data files (in folder data-raw) : Nestboxes_2021: Nest box monitoring sheets 2021 Nestboxes_2022: Nest box monitoring sheets 2022 Nestboxes_2023: Nest box monitoring sheets 2023 Starlings_ring: Starling ringing data pathogen_data: Blood parasite infection data