gigas-ploidy-heatwave

<p># gigas-ploidy-heatwave</p> <p>Data and code repository for publication, &quot;Triploid Pacific oysters exhibit stress response dysregulation and elevated mortality following marine heatwaves.&quot; The preprint on bioRXiv can be found at:</p> <p>This project was funded by the National Oceanographic Partnership Program (IWG-NOPP) and investigates the impact of marine heatwaves (temperature and/or desiccation) on diploid (2n) and triploid (3n) Pacific oysters. Hatchery experiments were conducted at the Jamestown S&#39;Klallam Point Whitney Shellfish Hatchery located on Dabob Bay, Washington, USA (47&deg;45&quot;N 122&deg;50&#39;W).</p> <p># Table of Contents<br> ### `analyses`<br> Output of R markdown files listed in `code` folder</p> <p>### `code`<br> R markdown files for each dataset analysis in `data` folder</p> <p>### `data`<br> Raw data for each analysis. Each subfolder can be analyzed from the `gigas-ploidy-heatwave.Rproj`. Additional data processing for respirometry data was first carried out in the `data/respirometry` folder using the `respirometry.Rproj` and R markdown files listed in `data/respirometry/code`. Additional data processing for tag-seq data was first carried out in `data/tag-seq` folder using the `tag-seq.Rproj` and R markdown files listed in `data/tag-seq/code`.</p> <p>### `figures`<br> Polished figures used in the publication</p> <p>### `stats`<br> Output of statistical tests from R markdown files in `data` folder</p> <p>### `suppl_figures`<br> Supplemental figures used in the publication</p> <p>### `suppl_tables`<br> Supplemental tables detailing DEG and GOterm lists for each treatment</p>