Physalia_population_genomics_2023

This repository contains the relevant code for the analysis in an upcoming manuscript on bluebottle (Physalia) diversity.

data

Sample information, iNaturalist image scoring results, and NCBI accession numbers for individual marker loci

results

Data files resulting from genomic analyses, including fasta alignment files and phylogenetic treefiles, covariance matrices, and genome size reports

Snakemake workflows

Recipes for performing all genomic analyses

conda

Conda environment package versions at the time analyses were performed

R code

quarto (markdown) files for analyzing data and generating figures

note: within analyses, sample numbers may not reflect the latest versions

• YPM-IZ-111211 should be NIWA 173304
• YPM-IZ-111212 should be NIWA 173305
• KM5632 should be TMAG K5632
• KM5633 should be TMAG K5633
• KM5634 should be TMAG K5634
• KM5635 should be TMAG K5635
• KM5636 should be TMAG K5636