Data from: Genome sequencing highlights the dynamic early history of dogs

Freedman AH, Gronau I, Schweizer RM, Ortega-Del Vecchyo D, Han E, Silva PM, Galaverni M, Fan Z, Marx P, Lorente-Galdos B, Beale H, Ramirez O, Hormozdiari F, Alkan C, Vilà C, Squire K, Geffen E, Kusak J, Boyko AR, Parker HG, Lee C, Tadigotla V, Siepel A, Bustamante CD, Harkins TT, Nelson SF, Ostrander EA, Marques-Bonet T, Wayne RK, Novembre J

Date Published: January 27, 2016

DOI: http://dx.doi.org/10.5061/dryad.sk3p7

 

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Title freedman_2014_plosgenetics_vcffiles
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Description Included in the tarball are merged vcf files, for individual autosomes, for the 6 canid genomes sequenced for and described in "Genome Sequencing Highlights the Dynamic Early History of Dogs", Freedman et al, PLoS Genetics 2014. Those are: Chinese wolf, Israeli wolf, Croatian wolf, Golden jackal, Dingo and Basenji.These files have been converted to boxer reference genome CanFam 3.1 coordinates (the original paper was in v. 3.0 coordinates). See Freedman et al. 2014 for a detailed description of filters.
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When using this data, please cite the original publication:

Freedman AH, Gronau I, Schweizer RM, Ortega-Del Vecchyo D, Han E, Silva PM, Galaverni M, Fan Z, Marx P, Lorente-Galdos B, Beale H, Ramirez O, Hormozdiari F, Alkan C, Vilà C, Squire K, Geffen E, Kusak J, Boyko AR, Parker HG, Lee C, Tadigotla V, Siepel A, Bustamante CD, Harkins TT, Nelson SF, Ostrander EA, Marques-Bonet T, Wayne RK, Novembre J (2014) Genome sequencing highlights the dynamic early history of dogs. PLOS Genetics 10(1): e1004016. http://dx.doi.org/10.1371/journal.pgen.1004016

Additionally, please cite the Dryad data package:

Freedman AH, Gronau I, Schweizer RM, Ortega-Del Vecchyo D, Han E, Silva PM, Galaverni M, Fan Z, Marx P, Lorente-Galdos B, Beale H, Ramirez O, Hormozdiari F, Alkan C, Vilà C, Squire K, Geffen E, Kusak J, Boyko AR, Parker HG, Lee C, Tadigotla V, Siepel A, Bustamante CD, Harkins TT, Nelson SF, Ostrander EA, Marques-Bonet T, Wayne RK, Novembre J (2014) Data from: Genome sequencing highlights the dynamic early history of dogs. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.sk3p7
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