Genomic resequencing data in the northern bottlenose whale, Hyperoodon ampullatus
This dataset contains resequencing data used in our northern bottlenose whale genomics research. In this project, we analyzed population structure, demographic history, and signatures of selection. Source code for genomic analyses is available at github.com/edegreef/NBW-resequencing. Data uploaded h...
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ftdatacite:10.5281/zenodo.5784896 2023-05-15T16:36:27+02:00 Genomic resequencing data in the northern bottlenose whale, Hyperoodon ampullatus de Greef, Evelien Einfeldt, Anthony Miller, Patrick Ferguson, Steve Garroway, Colin Lefort, Kyle Paterson, Ian Bentzen, Paul Feyrer, Laura 2021 https://dx.doi.org/10.5281/zenodo.5784896 https://zenodo.org/record/5784896 unknown Zenodo https://dx.doi.org/10.5281/zenodo.4541510 Open Access Creative Commons Attribution 4.0 International https://creativecommons.org/licenses/by/4.0/legalcode cc-by-4.0 info:eu-repo/semantics/openAccess CC-BY dataset Dataset 2021 ftdatacite https://doi.org/10.5281/zenodo.5784896 https://doi.org/10.5281/zenodo.4541510 2022-02-08T17:14:05Z This dataset contains resequencing data used in our northern bottlenose whale genomics research. In this project, we analyzed population structure, demographic history, and signatures of selection. Source code for genomic analyses is available at github.com/edegreef/NBW-resequencing. Data uploaded here contain: NBW_all_variantcalls.vcf.gz - All variant calls, including both indels and SNPs NBW_SNPS_unfiltered.vcf.gz - Unfiltered SNPs NBW_SNPS_filtered_population_analyses.vcf.gz - Filtered SNPs for population analyses. Filtered for quality (removed qual < 20, mq < 30, qd < 2, missingness > 0.4), non-biallelic sites, autosomes, structural variants, minor allele count 2, minimum scaffold length 50kb NBW_SNPS_filtered_pruned_population_analyses.vcf.gz - Additionally LD-pruned with r2 > 0.5 NBW_SNPS_filtered_demography_analyses.vcf.gz - Filtered SNPs for demography analyses. Filtered for quality, non-biallelic sites, autosomes, structural variants, minimum scaffold length 100kb. NBW_SNPS_filtered_imputed_haplotype_analyses.vcf.gz - Filtered and imputed SNPs for haplotype analyses. Filtered for quality, non-biallelic sites, autosomes, structural variants, max-missingness 0.1, minor allele count 2, minimum scaffold length 50kb. NBW_SNPS_filtered_Xchr.vcf.gz & NBW_SNPS_filtered_Ychr_males.vcf.gz - Filtered SNPs on X & Y chr. Filtered for quality, non-biallelic sites, structural variants, minor allele count 2, minimum scaffold length 50kb. Dataset hyperoodon ampullatus Northern bottlenose whale DataCite Metadata Store (German National Library of Science and Technology) |
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Open Polar |
collection |
DataCite Metadata Store (German National Library of Science and Technology) |
op_collection_id |
ftdatacite |
language |
unknown |
description |
This dataset contains resequencing data used in our northern bottlenose whale genomics research. In this project, we analyzed population structure, demographic history, and signatures of selection. Source code for genomic analyses is available at github.com/edegreef/NBW-resequencing. Data uploaded here contain: NBW_all_variantcalls.vcf.gz - All variant calls, including both indels and SNPs NBW_SNPS_unfiltered.vcf.gz - Unfiltered SNPs NBW_SNPS_filtered_population_analyses.vcf.gz - Filtered SNPs for population analyses. Filtered for quality (removed qual < 20, mq < 30, qd < 2, missingness > 0.4), non-biallelic sites, autosomes, structural variants, minor allele count 2, minimum scaffold length 50kb NBW_SNPS_filtered_pruned_population_analyses.vcf.gz - Additionally LD-pruned with r2 > 0.5 NBW_SNPS_filtered_demography_analyses.vcf.gz - Filtered SNPs for demography analyses. Filtered for quality, non-biallelic sites, autosomes, structural variants, minimum scaffold length 100kb. NBW_SNPS_filtered_imputed_haplotype_analyses.vcf.gz - Filtered and imputed SNPs for haplotype analyses. Filtered for quality, non-biallelic sites, autosomes, structural variants, max-missingness 0.1, minor allele count 2, minimum scaffold length 50kb. NBW_SNPS_filtered_Xchr.vcf.gz & NBW_SNPS_filtered_Ychr_males.vcf.gz - Filtered SNPs on X & Y chr. Filtered for quality, non-biallelic sites, structural variants, minor allele count 2, minimum scaffold length 50kb. |
format |
Dataset |
author |
de Greef, Evelien Einfeldt, Anthony Miller, Patrick Ferguson, Steve Garroway, Colin Lefort, Kyle Paterson, Ian Bentzen, Paul Feyrer, Laura |
spellingShingle |
de Greef, Evelien Einfeldt, Anthony Miller, Patrick Ferguson, Steve Garroway, Colin Lefort, Kyle Paterson, Ian Bentzen, Paul Feyrer, Laura Genomic resequencing data in the northern bottlenose whale, Hyperoodon ampullatus |
author_facet |
de Greef, Evelien Einfeldt, Anthony Miller, Patrick Ferguson, Steve Garroway, Colin Lefort, Kyle Paterson, Ian Bentzen, Paul Feyrer, Laura |
author_sort |
de Greef, Evelien |
title |
Genomic resequencing data in the northern bottlenose whale, Hyperoodon ampullatus |
title_short |
Genomic resequencing data in the northern bottlenose whale, Hyperoodon ampullatus |
title_full |
Genomic resequencing data in the northern bottlenose whale, Hyperoodon ampullatus |
title_fullStr |
Genomic resequencing data in the northern bottlenose whale, Hyperoodon ampullatus |
title_full_unstemmed |
Genomic resequencing data in the northern bottlenose whale, Hyperoodon ampullatus |
title_sort |
genomic resequencing data in the northern bottlenose whale, hyperoodon ampullatus |
publisher |
Zenodo |
publishDate |
2021 |
url |
https://dx.doi.org/10.5281/zenodo.5784896 https://zenodo.org/record/5784896 |
genre |
hyperoodon ampullatus Northern bottlenose whale |
genre_facet |
hyperoodon ampullatus Northern bottlenose whale |
op_relation |
https://dx.doi.org/10.5281/zenodo.4541510 |
op_rights |
Open Access Creative Commons Attribution 4.0 International https://creativecommons.org/licenses/by/4.0/legalcode cc-by-4.0 info:eu-repo/semantics/openAccess |
op_rightsnorm |
CC-BY |
op_doi |
https://doi.org/10.5281/zenodo.5784896 https://doi.org/10.5281/zenodo.4541510 |
_version_ |
1766026783607488512 |