:orphan:



.. _sphx_glr_auto_examples:

.. _examples-index:

Gallery of Examples
===================



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    <div class="sphx-glr-thumbcontainer" tooltip="To plot text, simply pass the text data to the plot function.  Here, we are ploting each SOTU a...">

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 .. figure:: /auto_examples/images/thumb/sphx_glr_plot_sotus_thumb.png

     :ref:`sphx_glr_auto_examples_plot_sotus.py`

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    </div>


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   /auto_examples/plot_sotus

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    <div class="sphx-glr-thumbcontainer" tooltip="Here is a basic example where we load in some data (a list of arrays - samples by features), ta...">

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 .. figure:: /auto_examples/images/thumb/sphx_glr_plot_basic_thumb.png

     :ref:`sphx_glr_auto_examples_plot_basic.py`

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    </div>


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   /auto_examples/plot_basic

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    <div class="sphx-glr-thumbcontainer" tooltip="The n_clusters kwarg can be used to discover clusters in your dataset.  It relies on scikit-lea...">

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 .. figure:: /auto_examples/images/thumb/sphx_glr_plot_clusters_thumb.png

     :ref:`sphx_glr_auto_examples_plot_clusters.py`

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    </div>


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   /auto_examples/plot_clusters

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    <div class="sphx-glr-thumbcontainer" tooltip="A 2D plot can be created by setting ndims=2.">

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 .. figure:: /auto_examples/images/thumb/sphx_glr_plot_2D_thumb.png

     :ref:`sphx_glr_auto_examples_plot_2D.py`

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    </div>


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   /auto_examples/plot_2D

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    <div class="sphx-glr-thumbcontainer" tooltip="Explore mode is an experimental feature that allows you to (not surprisingly) explore the point...">

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 .. figure:: /auto_examples/images/thumb/sphx_glr_explore_thumb.png

     :ref:`sphx_glr_auto_examples_explore.py`

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    </div>


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   /auto_examples/explore

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    <div class="sphx-glr-thumbcontainer" tooltip="Hypertools supports single-index Pandas Dataframes as input. In this example, we plot the mushr...">

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 .. figure:: /auto_examples/images/thumb/sphx_glr_plot_dataframe_thumb.png

     :ref:`sphx_glr_auto_examples_plot_dataframe.py`

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    </div>


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   /auto_examples/plot_dataframe

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    <div class="sphx-glr-thumbcontainer" tooltip="The past trajectory of an animated plot can be visualized with the chemtrails argument.  This d...">

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 .. figure:: /auto_examples/images/thumb/sphx_glr_chemtrails_thumb.png

     :ref:`sphx_glr_auto_examples_chemtrails.py`

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    </div>


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   /auto_examples/chemtrails

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    <div class="sphx-glr-thumbcontainer" tooltip="In addition to plotting dynamic timeseries data, the spin feature can be used to visualize stat...">

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 .. figure:: /auto_examples/images/thumb/sphx_glr_animate_spin_thumb.png

     :ref:`sphx_glr_auto_examples_animate_spin.py`

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    </div>


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   /auto_examples/animate_spin

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    <div class="sphx-glr-thumbcontainer" tooltip="This is a trajectory of brain data plotted in 3D with multidimensional scaling.">

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 .. figure:: /auto_examples/images/thumb/sphx_glr_animate_MDS_thumb.png

     :ref:`sphx_glr_auto_examples_animate_MDS.py`

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    </div>


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   /auto_examples/animate_MDS

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    <div class="sphx-glr-thumbcontainer" tooltip="Timeseries plots can be animated by simply passing animate=True to the geo ( or when calling hy...">

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 .. figure:: /auto_examples/images/thumb/sphx_glr_animate_thumb.png

     :ref:`sphx_glr_auto_examples_animate.py`

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    </div>


.. toctree::
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   /auto_examples/animate

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    <div class="sphx-glr-thumbcontainer" tooltip="The future trajectory of an animated plot can be visualized with the precog argument.  This dis...">

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 .. figure:: /auto_examples/images/thumb/sphx_glr_precog_thumb.png

     :ref:`sphx_glr_auto_examples_precog.py`

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    </div>


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   /auto_examples/precog

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    <div class="sphx-glr-thumbcontainer" tooltip="The downside to using dimensionality reduction to visualize your data is that some variance wil...">

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 .. figure:: /auto_examples/images/thumb/sphx_glr_plot_describe_thumb.png

     :ref:`sphx_glr_auto_examples_plot_describe.py`

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    </div>


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   /auto_examples/plot_describe

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    <div class="sphx-glr-thumbcontainer" tooltip="An example of how to use the legend kwarg to generate a legend.">

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 .. figure:: /auto_examples/images/thumb/sphx_glr_plot_legend_thumb.png

     :ref:`sphx_glr_auto_examples_plot_legend.py`

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    </div>


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   /auto_examples/plot_legend

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    <div class="sphx-glr-thumbcontainer" tooltip="To save a plot, simply use the save_path kwarg, and specify where you want the image to be save...">

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 .. figure:: /auto_examples/images/thumb/sphx_glr_save_image_thumb.png

     :ref:`sphx_glr_auto_examples_save_image.py`

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    </div>


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   /auto_examples/save_image

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    <div class="sphx-glr-thumbcontainer" tooltip="This example loads in some data from the scikit-learn digits dataset and plots it.">

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 .. figure:: /auto_examples/images/thumb/sphx_glr_plot_digits_thumb.png

     :ref:`sphx_glr_auto_examples_plot_digits.py`

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    </div>


.. toctree::
   :hidden:

   /auto_examples/plot_digits

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    <div class="sphx-glr-thumbcontainer" tooltip="This example loads in some data from the scikit-learn digits dataset and plots it using t-SNE.">

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 .. figure:: /auto_examples/images/thumb/sphx_glr_plot_TSNE_thumb.png

     :ref:`sphx_glr_auto_examples_plot_TSNE.py`

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    </div>


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   :hidden:

   /auto_examples/plot_TSNE

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    <div class="sphx-glr-thumbcontainer" tooltip="This example loads in some data from the scikit-learn digits dataset and plots it using UMAP.">

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 .. figure:: /auto_examples/images/thumb/sphx_glr_plot_UMAP_thumb.png

     :ref:`sphx_glr_auto_examples_plot_UMAP.py`

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    </div>


.. toctree::
   :hidden:

   /auto_examples/plot_UMAP

.. raw:: html

    <div class="sphx-glr-thumbcontainer" tooltip="To save an animation, simply add the save_path kwarg and specify the path where you want to sav...">

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 .. figure:: /auto_examples/images/thumb/sphx_glr_save_movie_thumb.png

     :ref:`sphx_glr_auto_examples_save_movie.py`

.. raw:: html

    </div>


.. toctree::
   :hidden:

   /auto_examples/save_movie

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    <div class="sphx-glr-thumbcontainer" tooltip="This example demonstrates how to use the analyze function to process data prior to plotting. Th...">

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 .. figure:: /auto_examples/images/thumb/sphx_glr_analyze_thumb.png

     :ref:`sphx_glr_auto_examples_analyze.py`

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    </div>


.. toctree::
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   /auto_examples/analyze

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    <div class="sphx-glr-thumbcontainer" tooltip="To make use of HDBSCAN as the clustering algorithm used to discover clusters, you must specify ...">

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 .. figure:: /auto_examples/images/thumb/sphx_glr_plot_clusters3_thumb.png

     :ref:`sphx_glr_auto_examples_plot_clusters3.py`

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    </div>


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   :hidden:

   /auto_examples/plot_clusters3

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    <div class="sphx-glr-thumbcontainer" tooltip="In this example, we plot the trajectory of multivariate brain activity for two groups of subjec...">

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 .. figure:: /auto_examples/images/thumb/sphx_glr_plot_align_thumb.png

     :ref:`sphx_glr_auto_examples_plot_align.py`

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    </div>


.. toctree::
   :hidden:

   /auto_examples/plot_align

.. raw:: html

    <div class="sphx-glr-thumbcontainer" tooltip="By default, the text samples will be transformed into a vector of word counts and then modeled ...">

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 .. figure:: /auto_examples/images/thumb/sphx_glr_plot_corpus_thumb.png

     :ref:`sphx_glr_auto_examples_plot_corpus.py`

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    </div>


.. toctree::
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   /auto_examples/plot_corpus

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    <div class="sphx-glr-thumbcontainer" tooltip="In this example, we load in some synthetic data, rotate it, and then use the procustes function...">

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 .. figure:: /auto_examples/images/thumb/sphx_glr_plot_procrustes_thumb.png

     :ref:`sphx_glr_auto_examples_plot_procrustes.py`

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    </div>


.. toctree::
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   /auto_examples/plot_procrustes

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    <div class="sphx-glr-thumbcontainer" tooltip="When plotting, its useful to have a way to color points by some category or variable.  Hypertoo...">

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 .. figure:: /auto_examples/images/thumb/sphx_glr_plot_hue_thumb.png

     :ref:`sphx_glr_auto_examples_plot_hue.py`

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    </div>


.. toctree::
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   /auto_examples/plot_hue

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    <div class="sphx-glr-thumbcontainer" tooltip="This is an example of how to use the label(s) kwarg, which must be a list the length of the num...">

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 .. figure:: /auto_examples/images/thumb/sphx_glr_plot_labels_thumb.png

     :ref:`sphx_glr_auto_examples_plot_labels.py`

.. raw:: html

    </div>


.. toctree::
   :hidden:

   /auto_examples/plot_labels

.. raw:: html

    <div class="sphx-glr-thumbcontainer" tooltip="To plot text, simply pass the text data to the plot function.  By default, the text samples wil...">

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 .. figure:: /auto_examples/images/thumb/sphx_glr_plot_text_thumb.png

     :ref:`sphx_glr_auto_examples_plot_text.py`

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    </div>


.. toctree::
   :hidden:

   /auto_examples/plot_text

.. raw:: html

    <div class="sphx-glr-thumbcontainer" tooltip="Here is an example where we generate some synthetic data, and then use the cluster function to ...">

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 .. figure:: /auto_examples/images/thumb/sphx_glr_plot_clusters2_thumb.png

     :ref:`sphx_glr_auto_examples_plot_clusters2.py`

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    </div>


.. toctree::
   :hidden:

   /auto_examples/plot_clusters2

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    <div class="sphx-glr-thumbcontainer" tooltip="When the plot function is called, it returns a DataGeometry object, or geo. A geo contains all ...">

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 .. figure:: /auto_examples/images/thumb/sphx_glr_plot_geo_thumb.png

     :ref:`sphx_glr_auto_examples_plot_geo.py`

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    </div>


.. toctree::
   :hidden:

   /auto_examples/plot_geo

.. raw:: html

    <div class="sphx-glr-thumbcontainer" tooltip="When you pass a matrix with with missing data, hypertools will attempt to fill in the values us...">

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 .. figure:: /auto_examples/images/thumb/sphx_glr_plot_PPCA_thumb.png

     :ref:`sphx_glr_auto_examples_plot_PPCA.py`

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    </div>


.. toctree::
   :hidden:

   /auto_examples/plot_PPCA

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    <div class="sphx-glr-thumbcontainer" tooltip="Often times its useful to normalize (z-score) you features before plotting, so that they are on...">

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 .. figure:: /auto_examples/images/thumb/sphx_glr_plot_normalize_thumb.png

     :ref:`sphx_glr_auto_examples_plot_normalize.py`

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    </div>


.. toctree::
   :hidden:

   /auto_examples/plot_normalize

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    <div class="sphx-glr-thumbcontainer" tooltip="If you have data with missing values, Hypertools will try to interpolate them using PPCA.  To v...">

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 .. figure:: /auto_examples/images/thumb/sphx_glr_plot_missing_data_thumb.png

     :ref:`sphx_glr_auto_examples_plot_missing_data.py`

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    </div>


.. toctree::
   :hidden:

   /auto_examples/plot_missing_data
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    <div class="sphx-glr-clear"></div>



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 .. container:: sphx-glr-footer
    :class: sphx-glr-footer-gallery


  .. container:: sphx-glr-download

    :download:`Download all examples in Python source code: auto_examples_python.zip <//home/docs/checkouts/readthedocs.org/user_builds/hypertools/checkouts/latest/docs/auto_examples/auto_examples_python.zip>`



  .. container:: sphx-glr-download

    :download:`Download all examples in Jupyter notebooks: auto_examples_jupyter.zip <//home/docs/checkouts/readthedocs.org/user_builds/hypertools/checkouts/latest/docs/auto_examples/auto_examples_jupyter.zip>`


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

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