ClustalOmegaResult

class biotite.application_v2.clustalo.ClustalOmegaResult(alignment: Alignment, order: np.ndarray, guide_tree: Tree, distance_matrix: np.ndarray | None)

Bases: object

The result of a Clustal-Omega alignment run.

Attributes:

alignmentAlignment

The global multiple sequence alignment.

orderndarray, dtype=int

The order of the sequences intended by Clustal-Omega. Usually this order (e.g. based on the guide tree) differs from the input order.

guide_treeTree

The guide tree used for the progressive alignment. If a guide tree was given as input, this is that tree.

distance_matrixndarray, shape=(n,n), dtype=float or None

The pairwise sequence distances used to calculate the guide tree. Only available if use_full_matrix was set, otherwise None.