EDBMMtrees: Simualated phylogenetic trees using EDBMM

In DomBennett/MoreTreeTools: Tools for manipulating phylogenetic trees

Description

List of three large (~1000 tips) simulated phylo trees with fossils and edge diversity data frames generated with calcEdgeDiversity.

names(EDBMMtrees) refers to:

• DE – Dead-End simulated tree, generated with sig = -1 and eps = +1

• Pan – Panchronic simulated tree, generated with sig = -1 and eps = -1

• Hyd – Hydra simulated tree, generated with sig = -1 and eps = 0

Data was generated with this script.

Usage

   data (EDBMMtrees)

Format

EDBMMtrees is a list.

See Also

chromatophylo

Examples

data (EDBMMtrees) # load object
str (edbmm.trees)  # inspect
# plot each for comparison (this would take a long time)
#chromatophylo (edbmm.trees[['DE']][['tree']],
#               edge.cols=edbmm.trees[['DE']][['edge.diversity']],
#               legend.title='Diversity') + ggtitle ('DE')
#chromatophylo (edbmm.trees[['Pan']][['tree']],
#               edge.cols=edbmm.trees[['Pan']][['edge.diversity']],
#               legend.title='Diversity') + ggtitle ('Pan')
#chromatophylo (edbmm.trees[['Hyd']][['tree']],
#               edge.cols=edbmm.trees[['Hyd']][['edge.diversity']],
#               legend.title='Diversity') + ggtitle ('Hyd')

DomBennett/MoreTreeTools documentation built on May 6, 2019, 2:51 p.m.