.. _references_genomics:

References (genomics: sequences, motifs, RNA)
#############################################

.. contents::
   :local:

Sequence basics
===============

.. automodule:: sequana.sequence
    :members:
    :undoc-members:

.. automodule:: sequana.codon
    :members:
    :undoc-members:

.. automodule:: sequana.biomol
    :members:
    :undoc-members:

Regulatory / regulatory-adjacent
================================

.. automodule:: sequana.kozak
    :members:
    :undoc-members:

.. automodule:: sequana.telomere
    :members:
    :undoc-members:

.. automodule:: sequana.cpg_islands
    :members:
    :undoc-members:

.. automodule:: sequana.restriction
    :members:
    :undoc-members:

.. automodule:: sequana.kmer
    :members:
    :undoc-members:

Non-B DNA / motif detection
===========================

.. automodule:: sequana.G4hunter
    :members:
    :undoc-members:

.. automodule:: sequana.hdna
    :members:
    :undoc-members:

.. automodule:: sequana.zdna
    :members:
    :undoc-members:

.. automodule:: sequana.imotif
    :members:
    :undoc-members:

.. automodule:: sequana.cruciforms
    :members:
    :undoc-members:

.. automodule:: sequana.palindromes
    :members:
    :undoc-members:

.. automodule:: sequana.find_motif
    :members:
    :undoc-members:

RNA structure & rRNA depletion
==============================

.. automodule:: sequana.rnafold
    :members:
    :undoc-members:

.. automodule:: sequana.ribodesigner
    :members:
    :undoc-members:

.. automodule:: sequana.ribodesigner2
    :members:
    :undoc-members: