"""
Analysis functions for AIRR-seq data.

Provides diversity metrics, clonality analysis, and repertoire comparison tools.
"""

from .diversity import clonality, diversity_metrics, common_sequences, rarefaction_curve
from .statistics import gini_coefficient, shannon_entropy
from .alignment import align_seq, phylo_tree, plot_phylo_tree

__all__ = [
    "clonality",
    "diversity_metrics",
    "common_sequences",
    "rarefaction_curve",
    "gini_coefficient",
    "shannon_entropy",
    "align_seq",
    "phylo_tree",
    "plot_phylo_tree",
]