Fast Algorithms for Frequency-Preserving Null Models in Ecology


[Up] [Top]

Documentation for package ‘CNull’ version 1.0

Help Pages

CNull-package CNull: Fast Algorithms for Frequency-Preserving Null Models in Ecology
CNull CNull: Fast Algorithms for Frequency-Preserving Null Models in Ecology
individual.based.communities.a Produces a set of random communities from a given matrix, based on the individual-based null model (Stegen et al. 2013). These communities can be used for alpha diversity computations
individual.based.communities.b Produces random pairs of communities from a given matrix, based on the individual-based null model (Stegen et al. 2013). These communities can be used for beta diversity computations
individual.based.moments.a Given a matrix and an alpha diversity measure f, calculates the mean and variance of f based on the individual-based null model (Stegen et al. 2013)
individual.based.moments.b Given a matrix and a beta diversity measure f, calculates the mean and variance of f based on the individual-based null model (Stegen et al. 2013)
individual.based.pvalues.a Produces the p-values of an alpha diversity measure f on a given matrix, based on the individual-based null model (Stegen et al. 2013)
individual.based.pvalues.b Produces the p-values of a beta diversity measure f on a given matrix, based on the individual-based null model (Stegen et al. 2013)
individual.based.random.values.a Produces a set of random values for an alpha diversity measure f on a given matrix, based on the individual-based null model (Stegen et al. 2013)
individual.based.random.values.b Produces a set of random values for a beta diversity measure f on a given matrix, based on the individual-based null model (Stegen et al. 2013)
permutation.communities.a Produces a set of random communities from a given matrix, based on the permutation (SIM2) null model. These communities can be used for alpha diversity computations
permutation.communities.b Produces random pairs of communities from a given matrix, based on the permutation (SIM2) null model. These communities can be used for beta diversity computations
permutation.moments.a Given a matrix and an alpha diversity measure f, calculates the mean and variance of f based on the permutation (SIM2) null model
permutation.moments.b Given a matrix and a beta diversity measure f, calculates the mean and variance of f based on the permutation (SIM2) null model
permutation.pvalues.a Produces the p-values of an alpha diversity measure f on a given matrix, based on the permutation (SIM2) null model
permutation.pvalues.b Produces the p-values of a beta diversity measure f on a given matrix, based on the permutation (SIM2) null model
permutation.random.values.a Produces a set of random values for an alpha diversity measure f on a given matrix, based on the permutation (SIM2) null model
permutation.random.values.b Produces a set of random values for a beta diversity measure f on a given matrix, based on the permutation (SIM2) null model