Data from: Genes mirror geography in Daphnia magna

Fields PD, Reisser C, Dukić M, Haag CR, Ebert D

DOI: http://dx.doi.org/10.5061/dryad.bv3gm

 

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Title D_magna_RADseq.vcf
Downloaded 16 times
Description Polymorphism data derived from 24 Daphnia magna clones, generated using the GATK v.3 pipeline.
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Title variant_calling.txt
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Description Description of the GATK pipeline used for generating .vcf file for 24 D. magna individuals.
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Title smartpca_run.txt
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Description Descriptions of the creation and commands to use SmartPCA to generate PCA eigenvectors and eigenvalues.
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Title Procrustes_test.txt
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Description R commands to run Procrustes rotation and significance test.
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Title relatedness_analysis.txt
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Description Scripts for using VCFtools and R to assess relationship between pair-wise relatedness and distance.
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Title Geographic_distance_matrix.txt
Downloaded 7 times
Description Pair-wise genetic distance between sampled clones, in kilometers.
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Title Pairwise_relatedness_full_dataset.txt
Downloaded 6 times
Description Estimates of pairwise relatedness derived from a full dataset of all clones, using VCFtools.
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Title Pairwise_relatedness_full_MNremoved.txt
Downloaded 5 times
Description Estimates of pairwise relatedness derived from a reduced dataset of clones, with the Mongolian clone removed, using VCFtools.
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Title Pairwise_relatedness_full_MNandILremoved.txt
Downloaded 3 times
Description Estimates of pairwise relatedness derived from a reduced dataset of clones, with the Mongolian and Israel clone removed, using VCFtools.
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When using this data, please cite the original publication:

Fields PD, Reisser C, Dukić M, Haag CR, Ebert D (2015) Genes mirror geography in Daphnia magna. Molecular Ecology 24(17): 4521–4536. http://dx.doi.org/10.1111/mec.13324

Additionally, please cite the Dryad data package:

Fields PD, Reisser C, Dukić M, Haag CR, Ebert D (2015) Data from: Genes mirror geography in Daphnia magna. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.bv3gm
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