Recent R packages for ecology and evolution

June 14, 2012

(This article was first published on Recology - R, and kindly contributed to R-bloggers)

Many R packages/tools have come out recently for doing ecology and evolution. All of the below were described in Methods in Ecology and Evolution, except for spider, which came out in Molecular Ecology Resources. Here are some highlights.

  • mvabund paperget R pkg
    • Model-based analysis of multivariate abundance data. Visualising data, fitting predictive models, checking assumptions, hypothesis testing.
  • popdemo paperget R pkg
    • Population demography using projection matrix analysis.
  • motmot paperget R pkg
    • Models of trait macroevolution on trees
  • spider paperget R pkg
    • Analysis of species identity and evolution, with particular reference to DNA barcoding
  • BaSTA paperget R pkg
    • Bayesian estimation of age-specific survival from incomplete mark–recapture/recovery data with covariates
  • abc paperget R pkg
    • Approximate Bayesian Computation (ABC)
  • RNetLogo paperget R pkg
    • Running and exploring individual-based models implemented in NetLogo
  • phytools paperget R pkg
    • Tools for phylogenetic comparative biology
  • smatr paperget R pkg
    • Estimation and inference about allometric lines
  • RBrownie paperget R pkg ?
    • Testing hypotheses about rates of evolutionary change
  • polytomy resolver paperget R pkg
    • Resolve polytomies on dated phylogenies with their R scripts [here][].

And a cool tool came out for the Python programming language.

  • NichePy paperget python
    • Modular tools for estimating the similarity of ecological niche and species distribution models

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