BioNumPy documentation
------------------------

.. toctree::
   :maxdepth: 0
   :glob:
   :titlesonly:
   :caption: Home

   index
   introduction
   using_bionumpy_in_your_existing_project

.. toctree::
    :maxdepth: 0
    :glob:
    :titlesonly:
    :caption: Tutorials

    tutorials/fastq_filtering.rst
    tutorials/bam_handling.rst
    tutorials/subsetting_bed.rst
    tutorials/fastqc.rst
    tutorials/gc_content.rst
    tutorials/numpy_operations.rst
    tutorials/position_weight_matrix.rst
    tutorials/set_of_sequences.rst
    tutorials/similarity_measures.rst
    tutorials/extracting_kmers_around_snps.rst


.. toctree::
   :maxdepth: 2
   :glob:
   :caption: BioNumPy Concepts

   source/reading_files.rst
   source/working_with_big_data.rst
   source/encoding.rst
   source/supported_file_formats.rst
   source/sequences.rst
   source/intervals.rst
   source/multiple_data_sources.rst
   source/broadcastable_functions.rst
   source/rollable_functions.rst
   source/summarization.rst


.. toctree::
   :maxdepth: 3
   :caption: API documentation
   :glob:

   modules/*

.. toctree::
   :maxdepth: 0
   :glob:
   :caption: Other

   developer_guide.rst
   manuscript/index