Data from: Evolutionary processes driving spatial patterns of intra-specific genetic diversity in river ecosystems

Paz-Viñas I, Loot G, Stevens VM, Blanchet S

Date Published: November 23, 2015

DOI: http://dx.doi.org/10.5061/dryad.38c1g.2

 

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Title Simulated data from the gene-flow model
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Description Parameter values and summary statistics for simulations generated under the gene-flow model
Download Data_gene-flow_model.txt (470.4 Mb)
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Title Simulated data from the habitat availability model
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Description Parameter values and summary statistics for simulations generated under the habitat availability model
Download Data_habitat-availability_model.txt (498.5 Mb)
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Title Simulated data from the colonization model
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Description Parameter values and summary statistics for simulations generated under the colonization model
Download Data_colonization_model.txt (475.9 Mb)
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Title Simulated data from the gene-flow / habitat model
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Description Parameter values and summary statistics for simulations generated under the gene-flow / habitat model
Download Data_gene-flow-habitat_model.txt (519.0 Mb)
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Title Simulated data from the gene-flow / colonization model
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Description Parameter values and summary statistics for simulations generated under the gene-flow / colonization model
Download Data_gene-flow-colonization_model.txt (472.4 Mb)
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Title Simulated data from the habitat / colonization model
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Description Parameter values and summary statistics for simulations generated under the habitat / colonization model
Download Data_habitat-colonization_model.txt (546.3 Mb)
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Title Simulated data from the gene-flow / habitat / colonization model
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Description Parameter values and summary statistics for simulations generated under the gene-flow / habitat / colonization model
Download Data_gene-flow-habitat-colonization_model.txt (531.8 Mb)
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Title Simulated data from the NULL model
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Description Parameter values and summary statistics for simulations generated under the NULL model
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Title Scripts and data for meta-analyses
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Description Scripts and data we used for performing the meta-analyses
Download Scripts_meta-analyses_v2.zip (4.415 Kb)
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Title Scripts for simulating data under the eight models
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Description This file contains the .est and .par input files used for simulating the genetic datasets used in this article. There are eight different couples of .est/.par files, each of them being associated to one of the eight models presented in the article. The event at 40,000 generations before present (i.e. all genes in the network were send back to an unique deme at this date, considering a backwards in time timeframe), was used to uniformize coalescence times across simulations and models. Please, check the readme file for additional guidance.
Download Scripts_par_est_MODELS.zip (12.02 Kb)
Download README.docx (164.4 Kb)
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Title Demes IDs, and equivalences article vs. scripts
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Description (i) Figure representing the ID of demes in function of their spatial positioning in the network. This figure will help readers to assess to which deme corresponds each summary statistic provided in the simulated datasets shared in DRYAD. (ii) Table reporting the equivalences between the name of the parameters we used in the article and those we used in the .est and .par scripts we share in DRYAD (i.e., the scripts that were used to simulate genetic data with ABCSampler and SIMCOAL 2). We also report the description of the parameters and the prior parameter values we used.
Download Demes_and_parameter_equivalences.docx (164.4 Kb)
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When using this data, please cite the original publication:

Paz-Viñas I, Loot G, Stevens VM, Blanchet S (2015) Evolutionary processes driving spatial patterns of intra-specific genetic diversity in river ecosystems. Molecular Ecology 24(18): 4586–4604. http://dx.doi.org/10.1111/mec.13345

Additionally, please cite the Dryad data package:

Paz-Viñas I, Loot G, Stevens VM, Blanchet S (2015) Data from: Evolutionary processes driving spatial patterns of intra-specific genetic diversity in river ecosystems. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.38c1g.2
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