Uses of Class
pal.tree.SimpleTree

Packages that use SimpleTree
Package
Description
pal.supgma
 
pal.tree
Classes for providing the data structure of trees, for constructing and modifying trees, and for parameterizing trees (e.g., clock constraint).

  • Uses of SimpleTree in pal.supgma

    Subclasses of SimpleTree in pal.supgma
    Modifier and Type
    Class
    Description
    class 
    SUPGMATree
    constructs an SUPGMA tree from pairwise distances.

  • Uses of SimpleTree in pal.tree

    Subclasses of SimpleTree in pal.tree
    Modifier and Type
    Class
    Description
    class 
    ClusterTree
     
    class 
    NeighborJoiningTree
    constructs a neighbor-joining tree from pairwise distances

    Saitou, N., and Nei, M., (1987) The neighbor-joining method: A new method for reconstructing phylogenetic trees.
    class 
    ReadTree
    constructs a tree reading in a New Hampshire treefile, taking care for internal labels and branch lengths and binary/nonbinary and rooted/unrooted trees
    class 
    UPGMATree
    Deprecated.
    Use ClusterTree