WebValue. An object of class "fitPagel" which contains the optimized matrices under an independence & a dependence model, log-likelihoods, a likelihood ratio, and a P-value … Webphytools. phytools: Phylogenetic Tools for comparative biology (and other things) plot.backbonePhylo. Plots backbone tree with triangles as clades. plot.contMap. Map continuous trait evolution on the tree. plot.densityMap. Plot posterior density of stochastic mapping on a tree. plot.ltt95.
phytools package - RDocumentation
WebMar 7, 2024 · Details. fitPagel fits both an independent evolution model, as well as Pagel's (1994) binary dependent model, and compares them with a likelihood-ratio test.. … WebIn phytools::fitPagel this is done using the argument dep.var which can be "xy" (i.e., interdependence, the default), "x" or "y". The "xy" interdependent model is the most parameter rich and includes the others as special cases, while both "x" and "y" have the independent model as a special case. grassland in brazil are known as
fitPagel function - RDocumentation
WebSpecifically, the “fitPagel” function calculates the log-likelihood of two models in which termitophile presence was dependent or independent on nesting strategies. We compared the Akaike Information Criterion (AIC) of these two models. SAMPLING EFFORT. We investigated whether research effort correlates with the number of recorded ... Webphytools/R/fitPagel.R Go to file Cannot retrieve contributors at this time 362 lines (355 sloc) 12.1 KB Raw Blame ## function fits Pagel '94 model of correlated evolution of two binary characters ## uses fitMk, ape::ace, or geiger::fitDiscrete internally ## written by Liam J. Revell 2014, 2015, 2016, 2024, 2024 http://www.phytools.org/Cordoba2024/ch/6/Pagel94-challenge.html grassland in new zealand