Data from: Genome-wide SNP data suggests complex ancestry of sympatric North Pacific killer whale ecotypes

Foote AD, Morin PA

Date Published: June 23, 2016

DOI: http://dx.doi.org/10.5061/dryad.803q8

 

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Title Repeat filtered VCF file
Downloaded 6 times
Description Subset of a previously published SNP dataset available from doi: 10.5061/dryad.qk22t. Two loci were removed due to being in a gene putatively evolving under selection. A further 1,360 SNPs were removed due to being in regions of know repetitive elements, excessive or low coverage, or low mappability in the killer whale genome. This VCF file contains the genotypes of 115 individuals at 2,316 sites.
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Title Repeat and linkage filtered VCF file
Downloaded 9 times
Description The repeat-filtered SNP dataset was further filtered to minimise the effect of linkage by including only SNPs that were spaced >100-kb apart on a scaffold, retaining the genotypes for 115 individuals at 1,346 sites.
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Title Rad_orca_subsample1
Downloaded 4 times
Description SNAPP input file for subsample 1
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Title Rad_orca_subsample2
Downloaded 2 times
Description SNAPP input file for subsample 2
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Title Rad_orca_subsample3
Downloaded 1 time
Description SNAPP input file for subsample 3
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Title Rad_orca_subsample4
Downloaded 3 times
Description SNAPP input file for subsample 4
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Title Rad_orca_subsample5_10individs
Downloaded 1 time
Description SNAPP input file for subsample 5
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Title Rad_orca_subsample1 trees
Downloaded 1 time
Description Trees inferred by SNAPP for subsample 1
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Title Rad_orca_subsample2_1M trees
Description Trees inferred by SNAPP for subsample 2
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Title Rad_orca_subsample3_1M trees
Downloaded 1 time
Description Trees inferred by SNAPP for subsample 3
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Title Rad_orca_subsample4_1Mb trees
Downloaded 1 time
Description Trees inferred by SNAPP for subsample 4
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Title Rad_orca_subsample5_10individs_1M trees
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Description Trees inferred by SNAPP for subsample 5
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Title treemix input file
Downloaded 28 times
Description Input file for TreeMix
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Title STRUCTURE input file
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Description Input file for STRUCTURE analyses
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When using this data, please cite the original publication:

Foote AD, Morin PA (2016) Genome-wide SNP data suggest complex ancestry of sympatric North Pacific killer whale ecotypes. Heredity 117(5): 316-325. http://dx.doi.org/10.1038/hdy.2016.54

Additionally, please cite the Dryad data package:

Foote AD, Morin PA (2016) Data from: Genome-wide SNP data suggests complex ancestry of sympatric North Pacific killer whale ecotypes. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.803q8
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