Canadian Arctic whale genomic data for Gradient Forest analyses

This dataset contains resequencing data used in our Arctic whale genomics research exaiming genetic offsets using Gradient Forest analyses, including unfiltered genomic variants and filtered SNPs. Source code for genomic analyses is available at https://github.com/edegreef/arctic-whales-resequencing/tree/main/genetic_offsets. Data uploaded here contain:

Beluga whale:

sample_info_GF_beluga.csv - metadata for beluga whale samples

146Beluga.vcf.gz - all variant calls, including indels and SNPs (n = 146 beluga individuals), mapped to the beluga reference genome

140Belugas_filtered_imputed.vcf.gz - SNPs filtered for quality, autosomes, and MAF, and removal of close kin, and imputed (n = 140 beluga individuals)

140Belugas_filtered_imputed_thin.vcf.gz - Filtered SNPs thinned with minimum 1K bp distance (n = 140 beluga individuals)

Narwhal:

sample_info_GF_narwhal.csv - metadata for narwhal samples

narwhal_allvariants.n60.vcf.gz - all variant calls, including indels and SNPs (n = 60 narwhal individuals), mapped to the narwhal reference genome

narwhal_snps.filtered.n57.imputed.vcf.gz - SNPs filtered for quality, autosomes, and MAF, and removal of close kin, and imputed (n = 57 narwhal individuals)

narwhal_snps.filtered.n57.imputed.thin.vcf.gz - Filtered SNPs thinned with minimum 1K bp distance (n = 57 narwhal individuals)

Bowhead whale:

sample_info_GF_bowhead.csv - metadata for bowhead whale samples

bowhead_RWmap_allvariants.n20.vcf.gz  - all variant calls, including indels and SNPs (n = 20 bowhead individuals), mapped to the NA Right Whale reference genome

bowhead_RWmap_snps.filtered.n19.imputed.vcf.gz - SNPs filtered for quality, autosomes, and MAF, and removal of close kin, and imputed (n = 19 bowhead individuals)

bowhead_RWmap.snps.filtered.n19.imputed.thin.vcf.gz - Filtered SNPs thinned with minimum 1K bp distance (n = 19 bowhead individuals)