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src/b/i/biopython-HEAD/Bio/Phylo/Consensus.py   biopython(Download)
        # put new clade
        bitstr_clades[bitstr] = clade
    return BaseTree.Tree(root=root)
 
 
            (len(bitstr_clades) == len(terms) - 2 and len(root.clades) == 3)):
            break
    return BaseTree.Tree(root=root)
 
 
    """
    clades = [tree.root for tree in trees]
    return BaseTree.Tree(root=_part(clades), rooted=True)
 
 

src/b/i/biopython-HEAD/Bio/Phylo/TreeConstruction.py   biopython(Download)
            del dm[min_i]
        inner_clade.branch_length = 0
        return BaseTree.Tree(inner_clade)
 
    def nj(self, distance_matrix):
            root = clades[1]
 
        return BaseTree.Tree(root, rooted=False)
 
    def _height_of(self, clade):

src/b/i/biopython-HEAD/Bio/Phylo/NeXML.py   biopython(Download)
class Tree(BaseTree.Tree):
    """NeXML Tree object."""
 
    def __init__(self, root=None, rooted=False, id=None, name=None, weight=1.0):
        BaseTree.Tree.__init__(self, root=root or Clade(),

src/b/i/biopython-HEAD/Bio/Phylo/Newick.py   biopython(Download)
class Tree(BaseTree.Tree):
    """Newick Tree object."""
 
    def __init__(self, root=None, rooted=False, id=None, name=None, weight=1.0):
        BaseTree.Tree.__init__(self, root=root or Clade(),

src/b/i/biopython-HEAD/Bio/Phylo/CDAO.py   biopython(Download)
class Tree(BaseTree.Tree):
    """CDAO Tree object."""
 
    def __init__(self, root=None, rooted=False, id=None, name=None, weight=1.0):
        BaseTree.Tree.__init__(self, root=root or Clade(),

src/b/i/biopython-1.63/Bio/Phylo/NeXML.py   biopython(Download)
class Tree(BaseTree.Tree):
    """NeXML Tree object."""
 
    def __init__(self, root=None, rooted=False, id=None, name=None, weight=1.0):
        BaseTree.Tree.__init__(self, root=root or Clade(),

src/b/i/biopython-1.63/Bio/Phylo/Newick.py   biopython(Download)
class Tree(BaseTree.Tree):
    """Newick Tree object."""
 
    def __init__(self, root=None, rooted=False, id=None, name=None, weight=1.0):
        BaseTree.Tree.__init__(self, root=root or Clade(),

src/b/i/biopython-1.63/Bio/Phylo/CDAO.py   biopython(Download)
class Tree(BaseTree.Tree):
    """CDAO Tree object."""
 
    def __init__(self, root=None, rooted=False, id=None, name=None, weight=1.0):
        BaseTree.Tree.__init__(self, root=root or Clade(),

src/b/i/biopython-HEAD/Bio/Phylo/PhyloXML.py   biopython(Download)
class Phylogeny(PhyloElement, BaseTree.Tree):
    """A phylogenetic tree.
 
    :Parameters:
        root : Clade

src/b/i/biopython-1.63/Bio/Phylo/PhyloXML.py   biopython(Download)
class Phylogeny(PhyloElement, BaseTree.Tree):
    """A phylogenetic tree.
 
    :Parameters:
        root : Clade