EcoSimR

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EcoSimR is a software package to fit null models to ecological data. Currently three different types of models are supported: co-occurrence, niche overlap, and size ratio. The software comes with existing alogrithms and metrics, but individual users can also integrate their own algorithms, or use the null model engine to create new null models.

Help topics

Niche overlap null models

Functions used for running niche overlap null models

  • niche_null_model
    Niche overlap null models
  • ra1
    RA1 Niche Overlap Randomization Algorithm
  • ra2
    RA2 Niche Overlap Randomization Algorithm
  • ra3
    RA3 Niche Overlap Randomization Algorithm
  • ra4
    RA4 Niche Overlap Randomization Algorithm
  • pianka
    Pianka Niche Overlap Metric
  • czekanowski
    Czekanowski Niche Overlap Metric
  • pianka_var
    PiankaVariance Niche Overlap Metric
  • czekanowski_var
    CzekanowskiVariance Niche Overlap Metric
  • pianka_skew
    PiankaSkew Niche Overlap Metric
  • czekanowski_skew
    CzekanowskiSkew Niche Overlap Metric

Size Ratio null models

Functions used for running size ratio null models

Co-Occurrence null models

Functions used for running co-occurrence null models

  • cooc_null_model
    Co-Occurrence Null model
  • vector_sample
    Vector Sample Function
  • sim1
    Sim1 Co-occurrence Randomization Algorithm
  • sim2
    Sim2 Co-occurrence Randomization Algorithm
  • sim3
    Sim3 Co-occurrence Randomization Algorithm
  • sim4
    Sim4 Co-occurrence Randomization Algorithm
  • sim5
    Sim5 Co-occurrence Randomization Algorithm
  • sim6
    Sim6 Co-occurrence Randomization Algorithm
  • sim7
    Sim7 Co-occurrence Randomization Algorithm
  • sim8
    Sim8 Co-occurrence Randomization Algorithm
  • sim9
    Sim9 Co-occurrence Randomization Algorithm
  • sim10
    Sim10 Co-occurrence Randomization Algorithm
  • species_combo
    SpeciesCombo Co-occurrence Metric
  • checker
    Checker Co-occurrence Metric
  • c_score
    CScore Co-occurrence Metric
  • c_score_var
    CScoreVariance Co-occurrence Metric
  • c_score_skew
    CScoreSkew Co-occurrence Metric
  • v_ratio
    SchlutersVRatio Co-occurrence Metric
  • checker
    Checker Co-occurrence Metric

Data Sets

Data sets used in examples

Other

Vignettes

Dependencies

  • Depends: MASS
  • Imports:
  • Suggests: testthat, knitr
  • Extends:

Authors