kudoa-in-swordfish

This repo contains R code underpinning the analyses for our paper:

Bolin JA, Evans KJ, Schoeman DS, Moore II TS, Spillman CM, Hartog JR, Cummins, SF and Scales KL. 2024. A warming western boundary current increases the prevalence of commercially disruptive parasites in broadbill swordfish. Fisheries Oceanography, e12669.

Relevant manuscripts:

• Bolin J, Schoeman D, Evans K, Cummins S, Scales K. 2021, Achieving sustainable and climate-resilient fisheries requires marine ecosystem forecasts to include fish condition. Fish and Fisheries.
• Bolin J, Cummins S, Mitu S, Schoeman D, Evans K, Scales K. 2021, First report of Kudoa thunni and Kudoa musculoliquefaciens affecting the quality of commercially harvested yellowfin tuna and broadbill swordfish in Eastern Australia. Parasitology Research.

---

Contents

kudoa-in-swordfish
├── figures             <--- .png files of figures in main text   
├── figure_scripts      <--- code to generate figures in main text (outputs in \figures)  
├── functions           <--- bespoke functions used in \scripts   
├── renv                <--- library containing R packages used in this project   
└── scripts             <--- code used in the analysis 
└── supplement          <--- supplementary materials for the manuscript 

Notes

• Machine specifications used for the analysis are found in \supplement\Appendix_S1.pdf.
• R package versions are documented in a project-local library within the lockfile: renv.lock.

Questions or feedback?

Please submit an issue, or email your questions to J.Bolin: jessica(dot)anne(dot)bolin(at)gmail(dot)com

---