prolint.core.replica_detection
==============================

.. py:module:: prolint.core.replica_detection

.. autoapi-nested-parse::

   Replica detection utilities for ProLint.



Attributes
----------

.. autoapisummary::

   prolint.core.replica_detection.logger
   prolint.core.replica_detection.SEGMENT_IDS


Classes
-------

.. autoapisummary::

   prolint.core.replica_detection.ReplicaInfo
   prolint.core.replica_detection.ReplicaDetectionResult


Functions
---------

.. autoapisummary::

   prolint.core.replica_detection.detect_replicas
   prolint.core.replica_detection.get_replica_atoms


Module Contents
---------------

.. py:data:: logger

.. py:data:: SEGMENT_IDS
   :value: 'ABCDEFGHIJKLMNOPQRSTUVWXYZabcdefghijklmnopqrstuvwxyz0123456789'


.. py:class:: ReplicaInfo

   Information about a single molecular replica.


   .. py:attribute:: replica_id
      :type:  str


   .. py:attribute:: n_residues
      :type:  int


   .. py:attribute:: first_resid
      :type:  int


   .. py:attribute:: last_resid
      :type:  int


.. py:class:: ReplicaDetectionResult

   Result of replica detection analysis.


   .. py:attribute:: n_replicas
      :type:  int


   .. py:attribute:: detection_method
      :type:  Optional[str]


   .. py:attribute:: has_repeated_resids
      :type:  bool


   .. py:attribute:: replica_info
      :type:  List[ReplicaInfo]
      :value: []



   .. py:attribute:: fragments
      :type:  List[Any]
      :value: []



.. py:function:: detect_replicas(query_atoms) -> ReplicaDetectionResult

   Detect replicas in a query atom selection.

   Tries bond-based connectivity first, then falls back to residue ID
   replication detection for systems without bond info.


.. py:function:: get_replica_atoms(replica_result: ReplicaDetectionResult, replica_id: str)

   Get atoms for a specific replica by ID. Raises ValueError if not found.