.. _sphx_glr_auto_examples_03_annotation:

.. _examples-annotations:

Annotating Studysets
--------------------

Annotation tools within NiMARE (:mod:`~nimare.annotate`) refer to methods which
assign labels to analyses in a :class:`~nimare.nimads.Studyset`, generally based on text.


.. raw:: html

  <div id='sg-tag-list' class='sphx-glr-tag-list'></div>


.. raw:: html

    <div class="sphx-glr-thumbnails">

.. thumbnail-parent-div-open

.. raw:: html

    <div class="sphx-glr-thumbcontainer" tooltip="Perform simple term count or tf-idf value extraction from texts stored in a Studyset.">

.. only:: html

  .. image:: /auto_examples/03_annotation/images/thumb/sphx_glr_01_plot_tfidf_thumb.png
    :alt:

  :doc:`/auto_examples/03_annotation/01_plot_tfidf`

.. raw:: html

      <div class="sphx-glr-thumbnail-title">Simple annotation from text</div>
    </div>


.. raw:: html

    <div class="sphx-glr-thumbcontainer" tooltip="Download the Cognitive Atlas and extract CogAt terms from text.">

.. only:: html

  .. image:: /auto_examples/03_annotation/images/thumb/sphx_glr_02_plot_cognitive_atlas_thumb.png
    :alt:

  :doc:`/auto_examples/03_annotation/02_plot_cognitive_atlas`

.. raw:: html

      <div class="sphx-glr-thumbnail-title">The Cognitive Atlas</div>
    </div>


.. raw:: html

    <div class="sphx-glr-thumbcontainer" tooltip="Trains a latent Dirichlet allocation model with scikit-learn using abstracts from Neurosynth.">

.. only:: html

  .. image:: /auto_examples/03_annotation/images/thumb/sphx_glr_03_plot_lda_thumb.png
    :alt:

  :doc:`/auto_examples/03_annotation/03_plot_lda`

.. raw:: html

      <div class="sphx-glr-thumbnail-title">LDA topic modeling</div>
    </div>


.. raw:: html

    <div class="sphx-glr-thumbcontainer" tooltip="Train a generalized correspondence latent Dirichlet allocation model using abstracts.">

.. only:: html

  .. image:: /auto_examples/03_annotation/images/thumb/sphx_glr_04_plot_gclda_thumb.png
    :alt:

  :doc:`/auto_examples/03_annotation/04_plot_gclda`

.. raw:: html

      <div class="sphx-glr-thumbnail-title">GCLDA topic modeling</div>
    </div>


.. thumbnail-parent-div-close

.. raw:: html

    </div>


.. toctree::
   :hidden:

   /auto_examples/03_annotation/01_plot_tfidf
   /auto_examples/03_annotation/02_plot_cognitive_atlas
   /auto_examples/03_annotation/03_plot_lda
   /auto_examples/03_annotation/04_plot_gclda