Title: A Phylogenetic Simulator for Reticulate Evolution
c(person("Joshua", "Justison", email = "justisnojo@gmail.com", role = c("aut", "cre","cph")),
person("Klaus", "Schliep", role = c("cph"), comment = c("modified code from ape in 'write.net.R' and 'read.net.R'. Crediting original copyright holder")),
person("Emmanuel", "Paradis", role = c("cph"), comment = c("modified code from ape in 'write.net.R' and 'read.net.R'. Crediting original copyright holder")),
person("Daniel", "Lawson", role = c("cph"), comment = c("modified code from ape in 'write.net.R' and 'read.net.R'. Crediting original copyright holder"))
Description: A simulator for reticulate evolution under a birth-death-hybridization process. Here the birth-death process is extended to consider reticulate Evolution by allowing hybridization events to occur. The general purpose simulator allows the modeling of three different reticulate patterns: lineage generative hybridization, lineage neutral hybridization, and lineage degenerative hybridization. Users can also specify hybridization events to be dependent on a trait value or genetic distance. We also extend some phylogenetic tree utility and plotting functions for networks. We allow two different stopping conditions: simulated to a fixed time or number of taxa. When simulating to a fixed number of taxa, the user can simulate under the Generalized Sampling Approach that properly simulates phylogenies when assuming a uniform prior on the root age.
Author: Joshua Justison [aut, cre, cph],
Klaus Schliep [cph] (modified code from ape in 'write.net.R' and
'read.net.R'. Crediting original copyright holder),
Emmanuel Paradis [cph] (modified code from ape in 'write.net.R' and
Daniel Lawson [cph] (modified code from ape in 'write.net.R' and
'read.net.R'. Crediting original copyright holder)

Title: SiZer: Significant Zero Crossings
Description: Calculates and plots the SiZer map for scatterplot data.  A SiZer map is a way of examining when the p-th derivative of a scatterplot-smoother is significantly negative, possibly zero or significantly positive across a range of smoothing bandwidths.
Packaged: Thu Jun 12 11:27:10 2008; hornik