from nexus.tools.check_zeros import check_zeros, remove_zeros
from nexus.tools.combine_nexuses import combine_nexuses
from nexus.tools.shufflenexus import shufflenexus
from nexus.tools.sites import iter_constant_sites
from nexus.tools.sites import iter_unique_sites
from nexus.tools.sites import count_site_values
from nexus.tools.sites import new_nexus_without_sites
from nexus.tools.sites import tally_by_site
from nexus.tools.sites import tally_by_taxon
from nexus.tools.sites import count_binary_set_size
from nexus.tools.trees import (
    delete_trees, sample_trees, strip_comments_in_trees, visit_trees, visit_tree_nodes)

__all__ = [
    "binarise",
    "multistatise",
    "combine_nexuses",
    "shufflenexus",
    "iter_constant_sites",
    "iter_unique_sites",
    "count_site_values",
    "new_nexus_without_sites",
    "tally_by_site",
    "tally_by_taxon",
    "count_binary_set_size",
    "check_zeros",
    "remove_zeros",
    "delete_trees",
    "sample_trees",
    "strip_comments_in_trees",
    "visit_trees",
    "visit_tree_nodes",
]
