Data from: Seascape continuity plays an important role in determining patterns of spatial genetic structure in a coral reef fish

D'Aloia CC, Bogdanowicz SM, Harrison RG, Buston PM

Date Published: May 2, 2014

DOI: http://dx.doi.org/10.5061/dryad.td28r

 

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Title Sampling Locations
Downloaded 49 times
Description This Excel sheet provides the coordinates (latitude and longitude) for all sampling locations, as well as the number of individuals that were successfully genotyped (microsatellitess) and sequenced (mtDNA cytb) at each site.
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Title Haplotype Frequencies
Downloaded 38 times
Description This spreadsheet contains mtDNA haplotype frequencies across all ten sampling locations.
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Title Microsatellite Genotypes
Downloaded 49 times
Description This spreadsheet contains all individual genotypes for the 14 microsatellite loci used in the study. Individuals are grouped by sampling location.
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Title Aligned mtDNA sequences
Downloaded 14 times
Description This fasta file includes all aligned sequences for the mtDNA cytb haplotypes.
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Title R Code
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Description Complete R code for all statistical analyses including Firth penalized likelihood logistic regressions, linear mixed models, and mantel tests.
Download Finalized_RCODE.R (14.01 Kb)
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Title Logistic Regression Input File
Downloaded 11 times
Description Input file required to run R code. Contains all data needed for Firth logits.
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Title Linear Mixed Models (mtDNA) Input File
Downloaded 7 times
Description Input file to run linear mixed models in R code for mtDNA-based metrics of pairwise structure.
Download input_nonzeros.csv (1.963 Kb)
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Title Linear Mixed Models (micros) Input File
Downloaded 13 times
Description Input file needed for R code to run linear mixed models for microsatellite-based metrics of pairwise structure.
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Title Geographic Distance Matrix
Downloaded 14 times
Description Geographic distance matrix (km) used for mantel test in R code.
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Title PhiSt Matrix (mtDNA)
Downloaded 7 times
Description Pairwise PhiST (mtdna) matrix used for mantel tests in R code.
Download PhiST_matrix.txt (433 bytes)
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Title FST Matrix (mtDNA)
Downloaded 10 times
Description Pairwise FST matrix (mtDNA) used for mantel tests in R code.
Download FST_mtdna_matrix.txt (441 bytes)
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Title FST Matrix (micros)
Downloaded 16 times
Description Pairwise FST matrix, based on microsatellites, used for mantel tests in R code.
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Title G'ST Matrix (micros)
Downloaded 8 times
Description Hedrick's G'ST pairwise matrix, based on microsatellites, used for mantel tests in R code.
Download HedricksGST_micros_matrix.txt (660 bytes)
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When using this data, please cite the original publication:

D'Aloia CC, Bogdanowicz SM, Harrison RG, Buston PM (2014) Seascape continuity plays an important role in determining patterns of spatial genetic structure in a coral reef fish. Molecular Ecology 23(12): 2902-2913. http://dx.doi.org/10.1111/mec.12782

Additionally, please cite the Dryad data package:

D'Aloia CC, Bogdanowicz SM, Harrison RG, Buston PM (2014) Data from: Seascape continuity plays an important role in determining patterns of spatial genetic structure in a coral reef fish. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.td28r
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