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README -- BU2S versions prior to 3.2.x, and BU2S with Inversions

January 4, 2013 (updated September 16, 2016)

PLEASE NOTE: Current versions of "BU2S" are NOT archived here. For the most current version, please see the GitHub site for this project: https://github.com/flaxmans/bu2s .

Versions of BU2S code archived here (i.e., at SourceForge.net) are records of those used to generate data sets in three publications:

  1. Flaxman SM, Wacholder AC, Feder JL, and Nosil P. 2014. Theoretical models of the influence of genomic architecture on the dynamics of speciation. Molecular Ecology 23:4074-4088. doi: 10.1111/mec.12750.
  2. Flaxman SM, Feder JL, and Nosil P. 2013. Genetic hitchhiking and the dynamic buildup of genomic divergence during speciation-with-gene-flow. Evolution 67:2577-2591. doi: 10.1111/evo.12055.
  3. Feder JL, Nosil P, and Flaxman SM. 2014. Assessing when chromosomal rearrangements affect the dynamics of speciation: implications from computer simulations. Frontiers in Genetics 5:295. doi: 10.3389/fgene.2014.00295.

For a description of what BU2S is and what it does, please consult the publications above (see https://www.researchgate.net/profile/Samuel_Flaxman/publications for downloads of PDFs).

Data sets produced by the code for the first two publications above are available at DataDryad.org ( http://dx.doi.org/10.5061/dryad.kc596, http://dx.doi.org/10.5061/dryad.t894r )

This work is licensed under a Creative Commons Attribution 3.0 Unported License (http://creativecommons.org/licenses/by/3.0/). You can use it for any purpose you wish, so long as you acknowledge the author and preserve any existing copyright notices in any copies you create or distribute.

Absolutely NO warranty is implied for any portion of the code. There are many options built into the code which have not yet been vetted. Only those options used in the publications mentioned above should be considered to be reliable at this point in time.

Please email questions, comments, complaints, ideas, requests, and awesome cat pictures to samuel.flaxman@colorado.edu

Source: README.md, updated 2016-09-16