Data from: Demographic history inferred from genome-wide data reveals two lineages of sheldgeese endemic to a glacial refugium in the southern Atlantic

Kopuchian C, Campagna L, Di Giacomo AS, Wilson RE, Bulgarella M, Petracci P, Mazar Barnett J, Matus R, Blank O, McCracken KG

Date Published: April 26, 2016

DOI: http://dx.doi.org/10.5061/dryad.9fg2r

 

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Title Compressed output folder from the Stacks pipeline
Downloaded 9 times
Description This file contains the output from stacks and can be used to export genotypes with the "populations" module of the pipeline.
Download Chloephaga_stacks_output.tar (5.624 Gb)
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Title Chloephaga picta genotypes in .vcf format
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Description This is a .vcf file containing genotypes for Chloephaga picta at RAD loci. It was generated using the Stacks bioinformatics pipeline.
Download Chloephaga_picta_genotypes.vcf (1.078 Mb)
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Title Chloephaga rubidiceps and Chloephaga poliocephala genotypes in .vcf format
Downloaded 8 times
Description This is a .vcf file containing genotypes for Chloephaga rubidiceps and Chloephaga poliocephala at RAD loci. It was generated using the Stacks bioinformatics pipeline.
Download Chloephaga_rubidiceps_Chloephaga_poliocep...es.vcf (732.5 Kb)
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Title Chloephaga picta genotypes in genepop format
Downloaded 7 times
Description This file contains genotypes for Chloephaga picta at RAD loci in genepop format. It was generated using the Stacks pipeline.
Download Chloephaga_picta_genotypes.genepop (266.7 Kb)
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Title Chloephaga rubidiceps and Chloephaga poliocephala genotypes in genepop format
Downloaded 9 times
Description This file contains genotypes for Chloephaga rubidiceps and Chloephaga poliocephala at RAD loci in genepop format. It was generated using the Stacks pipeline.
Download Chloephaga_rubidiceps_Chloephaga_polioceph...nepop (175.8 Kb)
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Title populations command for C. rubidiceps
Downloaded 3 times
Description This file contains the command used to export genotypes from the Stacks output contained in the Chloephaga_stacks_output.tar file. It must be used in combination with the rubidiceps.txt population map.
Download populations_rubidiceps.sh (162 bytes)
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Title command for populations used to export picta genotypes
Downloaded 4 times
Description This file contains the command used to export genotypes from the Stacks output contained in the Chloephaga_stacks_output.tar file. It must be used in combination with the picta.txt population map.
Download populations_picta.sh (157 bytes)
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Title population map for C. picta
Downloaded 3 times
Description This file contains the individuals for which genotypes are to be exported using the populations module of the Stacks pipeline in combination with the files contained in the Chloephaga_stacks_output.tar folder.
Download picta.txt (1.043 Kb)
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Title population map for C. rubidiceps and C. poliocephala
Downloaded 2 times
Description This file contains the individuals for which genotypes are to be exported using the populations module of the Stacks pipeline in combination with the files contained in the Chloephaga_stacks_output.tar folder.
Download rubidiceps.txt (647 bytes)
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When using this data, please cite the original publication:

Kopuchian C, Campagna L, Di Giacomo AS, Wilson RE, Bulgarella M, Petracci P, Mazar Barnett J, Matus R, Blank O, McCracken KG (2016) Demographic history inferred from genome-wide data reveals two lineages of sheldgeese endemic to a glacial refugium in the southern Atlantic. Journal of Biogeography 43(10): 1979–1989. http://dx.doi.org/10.1111/jbi.12767

Additionally, please cite the Dryad data package:

Kopuchian C, Campagna L, Di Giacomo AS, Wilson RE, Bulgarella M, Petracci P, Mazar Barnett J, Matus R, Blank O, McCracken KG (2016) Data from: Demographic history inferred from genome-wide data reveals two lineages of sheldgeese endemic to a glacial refugium in the southern Atlantic. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.9fg2r
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