treetime/treeanc.py
def expanded_sequence(self, node, include_additional_constant_sites=False):
        """
        Expand a nodes compressed sequence into the real sequence

        Parameters
        ----------
        node : PhyloTree.Clade
           Tree node

        Returns
        -------
        seq : np.array
           Sequence as np.array of chars
        """
        if include_additional_constant_sites:
            L = self.seq_len
        else:
            L = self.seq_len - self.additional_constant_sites

        return node.cseq[self.full_to_reduced_sequence_map[:L]]
def expanded_sequence(self, node, include_additional_constant_sites=False):
        """
        Expand a nodes compressed sequence into the real sequence

        Parameters
        ----------
        node : PhyloTree.Clade
           Tree node

        Returns
        -------
        seq : np.array
           Sequence as np.array of chars
        """
        if include_additional_constant_sites:
            L = self.seq_len
        else:
            L = self.seq_len - self.additional_constant_sites

        return node.cseq[self.full_to_reduced_sequence_map[:L]]
def expanded_sequence ( self , node , include_additional_constant_sites = False ) : if include_additional_constant_sites : L = self . seq_len else : L = self . seq_len - self . additional_constant_sites return node . cseq [ self . full_to_reduced_sequence_map [ : L ] ]
Expand a nodes compressed sequence into the real sequence

        Parameters
        ----------
        node : PhyloTree.Clade
           Tree node

        Returns
        -------
        seq : np.array
           Sequence as np.array of chars
Expand a nodes compressed sequence into the real sequence