Collects several different methods for analyzing and working with connectivity data in R. Though primarily oriented towards marine larval dispersal, many of the methods are general and useful for terrestrial systems as well.

Author | David M. Kaplan <dmkaplan2000@gmail.com> [cre,aut], Marco Andrello <marco.andrello@gmail.com> [ctb] |

Date of publication | 2016-11-02 17:52:03 |

Maintainer | David M. Kaplan <dmkaplan2000@gmail.com> |

License | GPL (>= 2) |

Version | 0.3.3 |

https://github.com/dmkaplan2000/ConnMatTools.git |

**betasVectorDefault:** Compute vector of beta values

**BevertonHolt:** Beverton-Holt settler-recruit relationship

**chile.loco:** Connectivity matrix for loco (Concholepas concholepas) from...

**ConnMatTools:** Tools for working with connectivity matrices

**damselfish.lods:** Sample LOD score data for simulated and real parent-child...

**DispersalPerRecruitModel:** Population dynamics model based on lifetime-egg-production

**d.mix.dists.func:** Returns probability density function (PDF) for a mix of...

**DPRHomerangeGravity:** Extended DPR population dynamics model to include homerange...

**d.rel.conn.beta.prior:** Estimate the probability distribution of relative...

**d.rel.conn.dists.func:** Functions for estimating the probability distribution for...

**d.rel.conn.finite.settlement:** Estimate the probability distribution for the number of...

**d.rel.conn.multinomial.unnorm:** Calculates unnormalized probability density for relative...

**d.rel.conn.multiple:** Functions for estimating the probability distribution of...

**d.rel.conn.unif.prior:** Estimate the probability distribution of relative...

**dual.mark.transmission:** Fraction of eggs marked for male and female mark transmission

**eigs:** Compute some eigenvalues of a matrix

**gammaParamsConvert:** Gamma distribution shape and scale parameters from mean and...

**hockeyStick:** Hockey-stick settler-recruit relationship

**laplacianConnMat:** Uniform Laplacian connectivity matrix

**localRetention:** Local retention of a connectivity matrix

**mergeSubpops:** Merge subpopulations

**optimalSplitConnMat:** Iteratively, optimally split a connectivity matrix

**optim.rel.conn.dists:** Maximum-likelihood estimate for relative connectivity given...

**prob.marked:** Returns probability a set of observations correspond to...

**protectedAreaSelection:** Function to select optimal network of protected areas based...

**qualitySubpops:** Quality measure for subpopulation division

**recSplitConnMat:** Recursively subdivides a set of subpoplations

**reducedConnMat:** Reduced connectivity matrix according to a set of...

**relativeLocalRetention:** Relative local retention of a connectivity matrix

**r.marked.egg.fraction:** Estimates of fraction of eggs marked accounting for...

**selfRecruitment:** Self recruitment of a connectivity matrix

**settlerRecruitSlopeCorrection:** Correction for slope of settler-recruit relationship

**splitConnMat:** Split connectivity matrix into subpopulations

**stepfun.hist:** Create a probability density step function from a histogram...

**subpopsVectorToList:** Convert subpopulation vector to a list of indices

ConnMatTools

ConnMatTools/inst

ConnMatTools/inst/CITATION

ConnMatTools/tests

ConnMatTools/tests/test.laplacianConnMat.R

ConnMatTools/tests/test.optimalSplitConnMat.R

ConnMatTools/tests/test.connectivity_estimation.multinomial.R

ConnMatTools/tests/test.connectivity_estimation.multiple.R

ConnMatTools/tests/test.connectivity_estimation.beta.prior.R

ConnMatTools/tests/test.marked.egg.fraction.R

ConnMatTools/tests/test.dpr_model.R

ConnMatTools/tests/test.connectivity_estimation.R

ConnMatTools/tests/test.retentionStats.R

ConnMatTools/tests/test.connectivity_estimation.distributions.R

ConnMatTools/NAMESPACE

ConnMatTools/NEWS

ConnMatTools/data

ConnMatTools/data/chile.loco.RData

ConnMatTools/data/damselfish.lods.RData

ConnMatTools/R

ConnMatTools/R/connectivity_estimation.multinomial.R
ConnMatTools/R/connectivity_estimation.distributions.R
ConnMatTools/R/connectivity_estimation.multiple.R
ConnMatTools/R/utils.R
ConnMatTools/R/connectivity_estimation.R
ConnMatTools/R/Jacobi_EPT_reserve_selection.R
ConnMatTools/R/connectivity_estimation.finite_settlement.R
ConnMatTools/R/eigs.R
ConnMatTools/R/dpr_model.R
ConnMatTools/R/estimating_marked_egg_fraction.R
ConnMatTools/R/retentionStats.R
ConnMatTools/R/ConnMatTools.R
ConnMatTools/R/jacobi_etal_2012.R
ConnMatTools/R/datasets.R
ConnMatTools/README.md

ConnMatTools/MD5

ConnMatTools/DESCRIPTION

ConnMatTools/man

ConnMatTools/man/dual.mark.transmission.Rd
ConnMatTools/man/BevertonHolt.Rd
ConnMatTools/man/damselfish.lods.Rd
ConnMatTools/man/recSplitConnMat.Rd
ConnMatTools/man/protectedAreaSelection.Rd
ConnMatTools/man/stepfun.hist.Rd
ConnMatTools/man/DPRHomerangeGravity.Rd
ConnMatTools/man/selfRecruitment.Rd
ConnMatTools/man/chile.loco.Rd
ConnMatTools/man/relativeLocalRetention.Rd
ConnMatTools/man/settlerRecruitSlopeCorrection.Rd
ConnMatTools/man/optim.rel.conn.dists.Rd
ConnMatTools/man/prob.marked.Rd
ConnMatTools/man/qualitySubpops.Rd
ConnMatTools/man/ConnMatTools.Rd
ConnMatTools/man/laplacianConnMat.Rd
ConnMatTools/man/d.mix.dists.func.Rd
ConnMatTools/man/d.rel.conn.finite.settlement.Rd
ConnMatTools/man/r.marked.egg.fraction.Rd
ConnMatTools/man/mergeSubpops.Rd
ConnMatTools/man/DispersalPerRecruitModel.Rd
ConnMatTools/man/d.rel.conn.unif.prior.Rd
ConnMatTools/man/d.rel.conn.beta.prior.Rd
ConnMatTools/man/reducedConnMat.Rd
ConnMatTools/man/d.rel.conn.dists.func.Rd
ConnMatTools/man/localRetention.Rd
ConnMatTools/man/gammaParamsConvert.Rd
ConnMatTools/man/subpopsVectorToList.Rd
ConnMatTools/man/betasVectorDefault.Rd
ConnMatTools/man/splitConnMat.Rd
ConnMatTools/man/d.rel.conn.multinomial.unnorm.Rd
ConnMatTools/man/hockeyStick.Rd
ConnMatTools/man/optimalSplitConnMat.Rd
ConnMatTools/man/eigs.Rd
ConnMatTools/man/d.rel.conn.multiple.Rd
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