83 research outputs found

    epistasis_sims

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    Data simulated for pairwise epistasis. Each file in the compressed directory is for a different set of model parameters and each file contains ten replicates. Genotypes are given as 0 (homozygote), 1 (heterozygote), or 2 (homozygote)

    Scripts to recreate simulation results shown in Figures 2-4 in the article

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    Perl and R scripts to run simulation software and to create Figures with result

    directional_sims

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    Data simulated with directional selection. Each file in the compressed directory is for a different set of model parameters and each file contains ten replicates. Genotypes are given as 0 (homozygote), 1 (heterozygote), or 2 (homozygote)

    Example commands to run simulations for each Figure in the article

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    Column 1, Figure number; column 2, Figure subpart; column 3, architecture of selection; column 4, example command to run simulation to generate data presented in that Figur

    underdom.tar

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    Data simulated with underdominance. Each file in the compressed directory is for a different set of model parameters and each file contains ten replicates. Genotypes are given as 0 (homozygote), 1 (heterozygote), or 2 (homozygote)

    bgc_source

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    Source code (C++) for the Bayesian genomic cline model. Compilation requires GSL. Simple instructions for compilation, which might need to be modified, are included in bgc_main.C

    All input files used for simulations presented in the article

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    Files to specify deme settings: demefile; epistatic selection: epifile; single-locus selection: selfile; environmental settings: envifil

    Genotype likelihoods, 64 649 SNPs

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    Genotype likelihoods in vcf file format for the reduced data set without seedlings, 137 individuals

    Genotype likelihoods, 32 912 SNPs

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    Genotype likelihoods in vcf file format for the full data set including all 621 individuals
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