R: Markov Chain Models for Phylogenetic Trees

# Markov Chain Models for Phylogenetic Trees

## Documentation for package ‘markophylo’ version 1.0.9

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS

## Help Pages

markophylo-package | Markov chain models for phylogenetic trees.
estimaterates | Estimate substitution rate matrix.
estimaterates_f | Estimate substitution rate matrix.
markophylo | Markov chain models for phylogenetic trees.
patterns | Unique phyletic patterns with counts.
plottree | Plot the tree used with different hypothesized branch groupings (or clades) following unique rates coloured differently.
print.markophylo | Print summary information for the model fit.
simdata1 | Simulated data.
simdata2 | Simulated data.
simdata3 | Simulated data.
simdata4 | Simulated data.
simdata5 | Simulated data.