Research compendium for "Disentangling spatial, environmental, and demographic signals in population genomics of an exploited, estuarine-dependent flatfish."
Raw reads underlying analysis available from short read archive (SRA): BioProject PRJNA754841.
Extended methods and results can be found in:
Genotyping.Rmd
: Contains details for read mapping, SNP calling, VCF filtering, and haplotyping of genomic data set used for analysis; the final genotyped filedata/POPGEN/SFL.tidy.genotypes
is too large to be uploaded to github, it is in a zipped folder (data/POPGEN/SFL.tidy
).Analysis_SFL_PopGen.Rmd
: Contains fully reproducible analysis (code + supplementary figures and tables) described as described in the paper
knitted html files for both analysis are included for easier viewing.
All necessary custom scripts & functions can be found in /scr
.