Phylogenetic trees
Authors
Hector Baños, Nathaniel Bushek, Ruth Davidson, Elizabeth Gross, Pamela E. Harris, Robert Krone, Colby Long, Allen Stewart, Robert Walker
Categories
Abstract
We introduce the package PhylogeneticTrees for Macaulay2 which allows users to compute phylogenetic invariants for group-based tree models. We provide some background information on phylogenetic algebraic geometry and show how the package PhylogeneticTrees can be used to calculate a generating set for a phylogenetic ideal as well as a lower bound for its dimension. Finally, we show how methods within the package can be used to compute a generating set for the join of any two ideals.
Phylogenetic trees
Categories
Abstract
We introduce the package PhylogeneticTrees for Macaulay2 which allows users to compute phylogenetic invariants for group-based tree models. We provide some background information on phylogenetic algebraic geometry and show how the package PhylogeneticTrees can be used to calculate a generating set for a phylogenetic ideal as well as a lower bound for its dimension. Finally, we show how methods within the package can be used to compute a generating set for the join of any two ideals.
Authors
Hector Baños, Nathaniel Bushek, Ruth Davidson et al. (+6 more)
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