markophylo: Markov Chain Models for Phylogenetic Trees
Version 1.0.4

Allows for fitting of maximum likelihood models using Markov chains on phylogenetic trees for analysis of discrete character data. Examples of such discrete character data include restriction sites, gene family presence/absence, intron presence/absence, and gene family size data. Hypothesis-driven user- specified substitution rate matrices can be estimated. Allows for biologically realistic models combining constrained substitution rate matrices, site rate variation, site partitioning, branch-specific rates, allowing for non-stationary prior root probabilities, correcting for sampling bias, etc.

Package details

AuthorUtkarsh J. Dang and G. Brian Golding
Date of publication2015-12-31 08:29:14
MaintainerUtkarsh J. Dang <[email protected]>
LicenseGPL (>= 2)
Package repositoryView on CRAN
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markophylo documentation built on May 29, 2017, 11:53 p.m.