cython/doc/persistence_graphical_tools_user.rst


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Persistence graphical tools user manual
=======================================
Definition
----------
.. include:: persistence_graphical_tools_sum.rst


Show palette values
-------------------

This function is useful to show the color palette values of dimension:


.. testcode::

    import gudhi
    plt = gudhi.show_palette_values(alpha=1.0)
    plt.show()

.. plot::

    import gudhi
    plt = gudhi.show_palette_values(alpha=1.0)
    plt.show()

Show persistence as a barcode
-----------------------------

This function can display the persistence result as a barcode:

.. testcode::

    import gudhi
    
    periodic_cc = gudhi.PeriodicCubicalComplex(perseus_file=gudhi.__root_source_dir__ + \
        '/data/bitmap/3d_torus.txt')
    diag = periodic_cc.persistence()
    plt = gudhi.plot_persistence_barcode(diag)
    plt.show()

.. plot::

    import gudhi

    periodic_cc = gudhi.PeriodicCubicalComplex(perseus_file=gudhi.__root_source_dir__ + \
        '/data/bitmap/3d_torus.txt')
    diag = periodic_cc.persistence()
    print("diag = ", diag)
    plt = gudhi.plot_persistence_barcode(diag)
    plt.show()

Show persistence as a diagram
-----------------------------

This function can display the persistence result as a diagram:

.. testcode::

    import gudhi
    
    rips_complex = gudhi.RipsComplex(off_file=gudhi.__root_source_dir__ + \
        '/data/points/tore3D_1307.off', max_edge_length=0.2)
    simplex_tree = rips_complex.create_simplex_tree(max_dimension=3)
    diag = simplex_tree.persistence()
    plt = gudhi.plot_persistence_diagram(diag, band_boot=0.13)
    plt.show()

.. plot::

    import gudhi

    rips_complex = gudhi.RipsComplex(off_file=gudhi.__root_source_dir__ + \
        '/data/points/tore3D_1307.off', max_edge_length=0.2)
    simplex_tree = rips_complex.create_simplex_tree(max_dimension=3)
    diag = simplex_tree.persistence()
    plt = gudhi.plot_persistence_diagram(diag, band_boot=0.13)
    plt.show()