Rxivist logo

Rxivist combines preprints from bioRxiv with data from Twitter to help you find the papers being discussed in your field. Currently indexing 65,690 bioRxiv papers from 290,986 authors.

ResistanceGA: An R package for the optimization of resistance surfaces using genetic algorithms

By William E Peterman

Posted 29 Jul 2014
bioRxiv DOI: 10.1101/007575 (published DOI: 10.1111/2041-210x.12984)

1. Understanding how landscape features affect functional connectivity among populations is a cornerstone of landscape genetic analyses. However, parameterization of resistance surfaces that best describe connectivity is largely a subjective process that explores a limited parameter space. 2. ResistanceGA is a new R package that utilizes a genetic algorithm to optimize resistance surfaces based on pairwise genetic distances and either CIRCUITSCAPE resistance distances or cost distances calculated along least cost paths. Functions in this package allow for the optimization of both categorical and continuous resistance surfaces, as well as the simultaneous optimization of multiple resistance surfaces. 3. There is considerable controversy concerning the use of Mantel tests to accurately relate pairwise genetic distances with resistance distances. Optimization in ResistanceGA uses linear mixed effects models with the maximum likelihood population effects parameterization to determine AICc, which is the fitness function for the genetic algorithm. 4. ResistanceGA fills a void in the landscape genetic toolbox, allowing for unbiased optimization of resistance surfaces and for the simultaneous optimization of multiple resistance surfaces to create a novel composite resistance surface.

Download data

  • Downloaded 3,236 times
  • Download rankings, all-time:
    • Site-wide: 988 out of 65,724
    • In ecology: 14 out of 2,802
  • Year to date:
    • Site-wide: 8,489 out of 65,724
  • Since beginning of last month:
    • Site-wide: 17,957 out of 65,724

Altmetric data


Downloads over time

Distribution of downloads per paper, site-wide


Sign up for the Rxivist weekly newsletter! (Click here for more details.)


News