Exploring the Phylogenetic Signal in Continuous Traits

barplot.phylo4d | Barplot of Traits Values along a Phylogeny |

descentsNames | Names of descents |

directDescents | ID of direct descents |

distEq | Pairwise Distance from Regularly Distributed Points |

dotplot | Dotplot |

dotplot.phylo4d | Dotplot of Traits Values along a Phylogeny |

evenColors | Palette of evenly distributed colors |

focus | Focus on sub parts of a plot |

graphClust | Phylogenetically constrained clustering |

gridplot | Gridplot |

gridplot.phylo4d | Gridplot of Traits Values along a Phylogeny |

kStarTest | Computes permutation test for Blomberg's K Star |

kTest | Computes permutation test for Blomberg's K |

lambdaTest | Test Pagel's Lambda Optimize Pagel's Lambda and do a... |

layouterize | Set layout for plots |

layouterizeRatio | Set layout for plots |

lipaMoran | Local Indicator of Phylogenetic Association |

mantelStat | Mantel statistic |

matchTipsAndTraits | Match matrix row/col names with phylo4d tips/traits |

moranTest | Computes permutation test for Moran's I |

multiplot.phylo4d | Plots of Traits Values along a Phylogeny |

navic | Phylogeny and pollution sensitivity of diatoms |

orderGrArg | Reordering vector or matrix of settings. |

pagelLogLik | Computes log-likelihood for data and a given value of Pagel's... |

phyloCorrelogram | Phylogenetic correlogram |

phylosignal | phylosignal |

phyloSignalBS | Computes phylogenetic signal for bootstrapped replicates of a... |

phyloSignalINT | Computes phylogenetic signal at each internal node of a... |

phylosignalStats | Computes phylogenetic signal with different methods |

phyloSim | Simulate the behaviour of phylogenetic signal statistics with... |

phyloSimSignal | Phylogenetic signal estimation as a fraction of a Brownian... |

phyloWeights | Phylogenetic weights matrix |

plot.graphclust | Plot phylogenetically constrained clustering |

plot.phylocorrelogram | Plot a phylogenetic correlogram |

plot.phylosim | Plot 'phylosim' object |

plot.phylosimsignal | Plot signal estimation as a fraction of a Brownian Motion... |

print.graphclust | #' Print results of phylogenetically constrained clustering |

print.phylosimsignal | Print signal estimation as a fraction of a Brownian Motion... |

read.p4d | Read a phylo4d object from files |

rTraitContWeight | Traits Values Simulation |

subsetPhyloSimSignal | phyloSimSignal subsetting |

white2red | Color Palette |

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