Title: Efficient Comparative Phylogenetics on Large Trees
Description: Efficient tree manipulation functions including pruning, rerooting, calculation of most-recent common ancestors, calculating distances from the tree root and calculating pairwise distance matrices. Calculation of phylogenetic signal and mean trait depth (trait conservatism). Ancestral state reconstruction and hidden character prediction of discrete characters, using Maximum Likelihood and Maximum Parsimony methods. Simulating models of trait evolution, and generating random trees using birth-death models.
Depends: Rcpp (>= 0.12.10), naturalsort, stats
Packaged: 2017-05-19 21:55:00 UTC; stilianoslouca

Description: Efficient tree manipulation functions including pruning, rerooting, calculation of most-recent common ancestors, calculating distances from the tree root and calculating pairwise distance matrices. Calculation of phylogenetic signal and mean trait depth (trait conservatism). Ancestral state reconstruction and hidden character prediction of discrete characters, using Maximum Likelihood and Maximum Parsimony methods. Simulating and fitting models of trait evolution, and generating random trees using birth-death models.
Packaged: 2017-06-01 22:22:14 UTC; stilianoslouca

Title: Efficient Phylogenetics on Large Trees
Packaged: 2017-09-24 08:52:00 UTC; SteliosLouca

Packaged: 2017-09-27 21:22:01 UTC; stilianoslouca

Packaged: 2017-09-23 04:16:30 UTC; stilianoslouca

Description: Efficient tree manipulations for large phylogenies, including pruning, rerooting, calculation of most-recent common ancestors, calculating distances from the tree root and calculating pairwise distances. Calculation of phylogenetic signal and mean trait depth (trait conservatism). Ancestral state reconstruction and hidden character prediction of discrete characters, using maximum likelihood and maximum parsimony methods. Simulating and fitting models of trait evolution, and generating random trees using birth-death models. Citation: Louca, Stilianos and Doebeli, Michael (2017) <doi:10.1093/bioinformatics/btx701>.
Packaged: 2018-01-20 01:54:07 UTC; stilianoslouca