Smeds, L. & Ellegren, H. Molecular Ecology. Dec 02, 2022. https://doi.org/10.1111/mec.16802 Data (vcf, vep and gerp files) on dryad: doi:10.5061/dryad.7m0cfxpzj
Snakemake pipelines are found in snakemake/
Python and bash scripts are found in scripts/
R scripts are found in R/
Figures are found in plots/ (pdf versions of all figures) and in dag/ (directed acyclic graphs of snakemake pipelines)
Information on samples; temporal classes, generations, F_RoH, sex, accession numbers etc are found in help_files/
All commands to run the above mentioned scripts on the command line - including descriptions on each step - are found in the file commands_for_terminal.sh