.. DO NOT EDIT.
.. THIS FILE WAS AUTOMATICALLY GENERATED BY SPHINX-GALLERY.
.. TO MAKE CHANGES, EDIT THE SOURCE PYTHON FILE:
.. "auto_examples/plot_classification_survival.py"
.. LINE NUMBERS ARE GIVEN BELOW.

.. only:: html

    .. note::
        :class: sphx-glr-download-link-note

        :ref:`Go to the end <sphx_glr_download_auto_examples_plot_classification_survival.py>`
        to download the full example code.

.. rst-class:: sphx-glr-example-title

.. _sphx_glr_auto_examples_plot_classification_survival.py:


Classification and survival
===========================

The classification metrics come from scikit-learn and the survival estimate from
lifelines; depictr redraws both under the shared theme. The survival figure adds
a number-at-risk table beneath the curves in one call.

.. GENERATED FROM PYTHON SOURCE LINES 9-17

.. code-block:: Python


    import numpy as np

    import depictr as dp

    ct = dp.clinical_trial()
    score = 1 / (1 + np.exp(-ct["biomarker"]))  # a probability-like score








.. GENERATED FROM PYTHON SOURCE LINES 18-19

An ROC curve with the area under the curve.

.. GENERATED FROM PYTHON SOURCE LINES 19-22

.. code-block:: Python

    p = dp.roc_curve_plot(ct["adverse_event"], score)
    p




.. image-sg:: /auto_examples/images/sphx_glr_plot_classification_survival_001.png
   :alt: plot classification survival
   :srcset: /auto_examples/images/sphx_glr_plot_classification_survival_001.png
   :class: sphx-glr-single-img





.. GENERATED FROM PYTHON SOURCE LINES 23-24

A calibration (reliability) curve.

.. GENERATED FROM PYTHON SOURCE LINES 24-27

.. code-block:: Python

    p = dp.calibration_plot(ct["adverse_event"], score)
    p




.. image-sg:: /auto_examples/images/sphx_glr_plot_classification_survival_002.png
   :alt: plot classification survival
   :srcset: /auto_examples/images/sphx_glr_plot_classification_survival_002.png
   :class: sphx-glr-single-img





.. GENERATED FROM PYTHON SOURCE LINES 28-29

A confusion-matrix heatmap, normalised by the true class.

.. GENERATED FROM PYTHON SOURCE LINES 29-33

.. code-block:: Python

    p = dp.confusion_matrix_plot(ct["adverse_event"], (score > 0.12).astype(int),
                                 normalise="true")
    p




.. image-sg:: /auto_examples/images/sphx_glr_plot_classification_survival_003.png
   :alt: plot classification survival
   :srcset: /auto_examples/images/sphx_glr_plot_classification_survival_003.png
   :class: sphx-glr-single-img





.. GENERATED FROM PYTHON SOURCE LINES 34-36

Kaplan-Meier curves with a log-rank test and a number-at-risk table. The
legend sits in the empty top-right the descending curves leave behind.

.. GENERATED FROM PYTHON SOURCE LINES 36-39

.. code-block:: Python

    p = dp.survival_plot(ct["time"], ct["event"], group=ct["arm"],
                         risk_table=True, legend_inside=True, title="Survival by arm")
    p



.. image-sg:: /auto_examples/images/sphx_glr_plot_classification_survival_004.png
   :alt: plot classification survival
   :srcset: /auto_examples/images/sphx_glr_plot_classification_survival_004.png
   :class: sphx-glr-single-img






.. rst-class:: sphx-glr-timing

   **Total running time of the script:** (0 minutes 0.719 seconds)


.. _sphx_glr_download_auto_examples_plot_classification_survival.py:

.. only:: html

  .. container:: sphx-glr-footer sphx-glr-footer-example

    .. container:: sphx-glr-download sphx-glr-download-jupyter

      :download:`Download Jupyter notebook: plot_classification_survival.ipynb <plot_classification_survival.ipynb>`

    .. container:: sphx-glr-download sphx-glr-download-python

      :download:`Download Python source code: plot_classification_survival.py <plot_classification_survival.py>`

    .. container:: sphx-glr-download sphx-glr-download-zip

      :download:`Download zipped: plot_classification_survival.zip <plot_classification_survival.zip>`


.. only:: html

 .. rst-class:: sphx-glr-signature

    `Gallery generated by Sphinx-Gallery <https://sphinx-gallery.github.io>`_