Potential areas of interest:

• Subsetting

• Building supertrees

• Resolving polytomies

• Comparing trees

• Building consensus trees

• Horizontal gene transfer

• Bayesian methods

• Fossil integration

• Uncertainty

• Diversification by itself

• Character-associated diversification

• Phylocom (also related R packages about ecology and phylogenetics)

• PhyloSort

• CONSERVE IV

• Brownie

• TreEvo

• EOT: https://pods.iplantcollaborative.org/wiki/display/iptol/EOT

• Stretching models:https://pods.iplantcollaborative.org/wiki/display/iptol/Stretching+models

• DataMatch:https://pods.iplantcollaborative.org/wiki/display/iptol/DataMatch

• Ancestral State Reconstruction by Maximum Parsimony:https://pods.iplantcollaborative.org/wiki/display/iptol/ASR-MP