Horse symbiotic communities

Analysis code for chapter 1 and 2 of PhD thesis: Anthropogenic pressures on the diversity and structure of host-associated symbiotic communities across domestic and wild animal systems

→ Overview

• Individual horse and property questionnaires
• Codes for analysing:
  • Gut microbiome of semi-feral/managed horses, SW Wales
  • Nemabiome of semi-feral/managed horses, SW Wales

→ Structure

├── horse_microbiome/
│   ├── analysis_1.R      # Influence of management status, seasonality, faecal trace metals, and sex on the horse microbiome
│   ├── analysis_2.R      # Influence of husbandry practices on the horse microbiome
│   └── analysis_3.R      # Influence of nemabiome on the horse microbiome
├── horse_nemabiome/
│   ├── strongylid_co_occurrence_analysis.R
│   ├── strongylid_infection_status_&_taxon_richness.R
│   └── taxon_specific_prevalence.R
├── questionnaires/
│   ├── Equestrian_property_and_management_questionnaire.pdf
│   └── Individual_horse_questionnaire.pdf
└── README.md

→ Requirements

• R (version 4.4.1) + packages as described in scripts

→ Contact

Alessandra Giacomini — 2156511@swansea.ac.uk