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:orphan:
.. To get rid of WARNING: document isn't included in any toctree
Persistence graphical tools user manual
=======================================
Definition
----------
.. include:: persistence_graphical_tools_sum.inc
Show persistence as a barcode
-----------------------------
.. note::
this function requires matplotlib and numpy to be available
This function can display the persistence result as a barcode:
.. plot::
:include-source:
import gudhi
off_file = gudhi.__root_source_dir__ + '/data/points/tore3D_300.off'
point_cloud = gudhi.read_off(off_file=off_file)
rips_complex = gudhi.RipsComplex(points=point_cloud, max_edge_length=0.7)
simplex_tree = rips_complex.create_simplex_tree(max_dimension=3)
diag = simplex_tree.persistence(min_persistence=0.4)
plot = gudhi.plot_persistence_barcode(diag)
plot.show()
Show persistence as a diagram
-----------------------------
.. note::
this function requires matplotlib and numpy to be available
This function can display the persistence result as a diagram:
.. plot::
:include-source:
import gudhi
# rips_on_tore3D_1307.pers obtained from write_persistence_diagram method
persistence_file=gudhi.__root_source_dir__ + \
'/data/persistence_diagram/rips_on_tore3D_1307.pers'
plt = gudhi.plot_persistence_diagram(persistence_file=persistence_file,
legend=True)
plt.show()
Persistence density
-------------------
.. note::
this function requires matplotlib, numpy and scipy to be available
If you want more information on a specific dimension, for instance:
.. plot::
:include-source:
import gudhi
# rips_on_tore3D_1307.pers obtained from write_persistence_diagram method
persistence_file=gudhi.__root_source_dir__ + \
'/data/persistence_diagram/rips_on_tore3D_1307.pers'
plt = gudhi.plot_persistence_density(persistence_file=persistence_file,
max_intervals=0, dimension=1, legend=True)
plt.show()
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