Data from: Stick insect genomes reveal natural selection's role in parallel speciation

Soria-Carrasco V, Gompert Z, Comeault AA, Farkas TE, Parchman TL, Johnston JS, Buerkle CA, Feder JL, Bast J, Schwander T, Egan SP, Crespi BJ, Nosil P

Date Published: May 19, 2014

DOI: http://dx.doi.org/10.5061/dryad.74j06

 

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Title bgsr.tar
Downloaded 18 times
Description C++ source code to analyze the transplant experimetns. This program analyzes allele frequency changes in experimental populations. The model assumes a set of experimental populations were founded from a single source population and that a sample of individuals from the source population exist. Further, the model assumes that individuals are sampled from each experimental population after a single generation. This software requires the GSL and HDF5. To compile the software try: h5c++ -O3 -o bgsr main.C mcmc.C func.C -lm -lgsl -lgslcblas
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Title fstanalysis
Downloaded 50 times
Description R code to calculate SNP-specific Fst.
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Title fitHmm
Downloaded 49 times
Description R code to fit and summarize the HMM for divergence state based on SNP Fst estimates.
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Title annotationScripts
Downloaded 37 times
Description This compressed directory contains perl scripts to retrieve gene annotation information for focal loci, an R script for an annotation-based randomization test, example files, and a README file.
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When using this data, please cite the original publication:

Soria-Carrasco V, Gompert Z, Comeault AA, Farkas TE, Parchman TL, Johnston JS, Buerkle CA, Feder JL, Bast J, Schwander T, Egan SP, Crespi BJ, Nosil P (2014) Stick insect genomes reveal natural selection's role in parallel speciation. Science 344 (6185): 738-742. http://dx.doi.org/10.1126/science.1252136

Additionally, please cite the Dryad data package:

Soria-Carrasco V, Gompert Z, Comeault AA, Farkas TE, Parchman TL, Johnston JS, Buerkle CA, Feder JL, Bast J, Schwander T, Egan SP, Crespi BJ, Nosil P (2014) Data from: Stick insect genomes reveal natural selection's role in parallel speciation. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.74j06
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