Data from: Shared and non-shared genomic divergence in parallel ecotypes of Littorina saxatilis at a local scale

Ravinet M, Westram A, Johannesson K, Butlin R, André C, Panova M

Date Published: July 23, 2015

DOI: http://dx.doi.org/10.5061/dryad.g466r

 

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Title Haplotype and genepop datasets
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Description All haplotype files generated by Stacks assembly and genepop files created by custom conversion. See README for additional information.
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Title Outlier loci
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Description Outlier loci identified using FreeNA corrected FST and He values in fdist. Each file is a fasta file with two lines - the locus identifier from the main catalogue and a consensus haplotype sequence. See README for a description of filenames.
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Title fdist output
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Description fdist output from each of the analyses performed in the main and supplementary text. See README file for more information.
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Title Final stacks catalogue
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Description Final stacks catalogue constructed using Stacks v1.21. See README for additional explanation
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Title Geometric morphometrics data
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Description Geometric morphometrics data for Littorina ecotypes. Columns are sample, ecotype, population (island), population x ecotype. Columns with 'proc' are size adjusted procrustes coordinates. Columns with 'PC' are principle components. Columns with 'CV' are canonical variates.
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Title Sample metatable
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Description Metatable of all samples used in study for both RAD-seq and morphometrics. Columns are sample, population (island), ecotype, sex (NS = not sexed), whether sample was RAD-sequenced, whether sample was used in initial catalogue, whether sample was used in final catalogue, whether sample was used in morphometrics and ENA accession number for sequenced individuals.
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Title vcf_files
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Description VCF files for Salto, Jutholmen, Ramso and the all-island dataset.
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Title Diversity statistics
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Description Diversity statistics calculated from haplotype data. See README for indepth explanation.
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When using this data, please cite the original publication:

Ravinet M, Westram A, Johannesson K, Butlin R, André C, Panova M (2016) Shared and non-shared genomic divergence in parallel ecotypes of Littorina saxatilis at a local scale. Molecular Ecology 25(1): 287–305. http://dx.doi.org/10.1111/mec.13332

Additionally, please cite the Dryad data package:

Ravinet M, Westram A, Johannesson K, Butlin R, André C, Panova M (2015) Data from: Shared and non-shared genomic divergence in parallel ecotypes of Littorina saxatilis at a local scale. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.g466r
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