biconnectedComponents |
Biconnected Components |
deleteTips |
Remove tips from a phylogenetic Network |
getNetworkLevel |
Get the level of a Network |
incompleteSampling |
Sample Tips on a Phylogenetic Network |
isFUstable |
Determine whether a phylogeny is FU-stable |
isNormal |
#' Determine whether a phylogeny is Normal |
isTreeBased |
Determine whether a network is tree-based |
isTreeChild |
Determine whether a network is tree-child |
ltt.network |
Lineages thru time on a network |
make.beta.draw |
Function that makes a draw from a beta distribution |
make.categorical.draw |
Function that makes a draw from a categorical distribution |
make.exp.decay |
Make an exponential decay function |
make.linear.decay |
Make a linear decay function |
make.polynomial.decay |
Make a polynomial decay function |
make.stepwise |
Make a stepwise decay function |
make.trait.model |
Model for trait evolution across the phylogeny |
make.uniform.draw |
Function that makes a draw from a uniform distribution |
network.gsa |
Sample under the Generalized Sampling Approach |
plottable.net |
Create a more Plotting-Friendly phylogenetic Network |
read.net |
Read a Network from Parenthetic Format |
reconstructedNetwork |
Remove Extinct Lineages from a Phylogenetic Network |
sim.bdh.age |
Simulate a Phylogenetic Network to a Specified Number of Taxa |
sim.bdh.taxa.gsa |
Simulate a Phylogenetic Network to a Specified Number of Taxa |
sim.bdh.taxa.ssa |
Simulate a Phylogenetic Network to a Specified Number of Taxa |
write.net |
Write a Network in Parenthetic Format |