Data from: Genome divergence and the genetic architecture of barriers to gene flow between Lycaeides idas and L. melissa

 

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Title oviposition
Downloaded 28 times
Description This file contains the oviposition preference data. The file includes the following fields: population name (pop), individual number (indnum), individual id (indid), sex, number of eggs laid on Astragalus miser (nast), and the number of eggs laid on Medicago sativa (nmed).
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Title morphology
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Description This file contains the male genitalic morphology measurements. The file includes fields for species, population (Pop), individual id (Ind), whether the left or right side of the genitalia was measured (Meas), and for each of the nine measurments. These measurements are described in the manuscript.
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Title afsource.tar
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Description This file contains source code for computer software that implements the allele frequency model described in the manuscript. Please e-mail zgompert@gmail.com for additional details, and full documentation will likely be released on-line in the future. 1. The software depend on the Gnu Scientific Library. The software can be compiled using the g++ compiler as follows (this assumes the GSL was isntalled in a standard location), g++ -o af main.C func.C -lm -lgsl -lgslcblas 2. You can view command line arguments to the software by typing the name of the compiled binary. The infile format is similar to the infile format for bgc. 3. Three output files are produced. One contains the posterior probabilities for the genotype at each locus for each individual (gprob). A second file contains a matrix with samples from the posterior probability distribution for the allele frequencies (afreq) with each row corresponding to an mcmc iteration and each column corresponding to a locus. The final file (alpha) contains samples from the posterior probability distribution of the genetic diversity parameter.
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Title allele counts
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Description This zipped file contains the number of reads matching each of two alternative allels for each indvidual and locus. Loci are delineated by a 'contig' line that gives the fragment number, position of the SNP on the pseudo-reference genome, and the estimated average error probability for the SNP. The other lines begin with an individual id, which is follwed by the number of read of each allele.
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When using this data, please cite the original publication:

Gompert Z, Lucas LK, Nice CC, Buerkle CA (2012) Genome divergence and the genetic architecture of barriers to gene flow between Lycaeides idas and L. melissa. Evolution 67(9): 2498-2514. http://dx.doi.org/10.1111/evo.12021

Additionally, please cite the Dryad data package:

Gompert Z, Lucas LK, Nice CC, Buerkle CA (2012) Data from: Genome divergence and the genetic architecture of barriers to gene flow between Lycaeides idas and L. melissa. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.n136c
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