:orphan:  .. only available via index, not via toctree

.. title:: Package Recipe 'bioconductor-curatedtcgadata'
.. highlight: bash

bioconductor-curatedtcgadata
============================

.. conda:recipe:: bioconductor-curatedtcgadata
   :replaces_section_title:
   :noindex:

   Curated Data From The Cancer Genome Atlas \(TCGA\) as MultiAssayExperiment Objects

   :homepage: https://bioconductor.org/packages/3.18/data/experiment/html/curatedTCGAData.html
   :license: Artistic-2.0
   :recipe: /`bioconductor-curatedtcgadata <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-curatedtcgadata>`_/`meta.yaml <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-curatedtcgadata/meta.yaml>`_

   This package provides publicly available data from The Cancer Genome Atlas \(TCGA\) as MultiAssayExperiment objects. MultiAssayExperiment integrates multiple assays \(e.g.\, RNA\-seq\, copy number\, mutation\, microRNA\, protein\, and others\) with clinical \/ pathological data. It also links assay barcodes with patient identifiers\, enabling harmonized subsetting of rows \(features\) and columns \(patients \/ samples\) across the entire multi\-\'omics experiment.


.. conda:package:: bioconductor-curatedtcgadata

   |downloads_bioconductor-curatedtcgadata| |docker_bioconductor-curatedtcgadata|

   :versions:
      
      
      .. raw:: html

         <details><summary><span class="truncated-version-list"><code>1.24.0-0</code>,  <code>1.22.2-0</code>,  <code>1.20.0-0</code>,  <code>1.16.0-1</code>,  <code>1.16.0-0</code>,  <code>1.14.0-0</code>,  <code>1.12.0-1</code>,  <code>1.12.0-0</code>,  <code>1.10.0-0</code>,  </span></summary>
      

      ``1.24.0-0``,  ``1.22.2-0``,  ``1.20.0-0``,  ``1.16.0-1``,  ``1.16.0-0``,  ``1.14.0-0``,  ``1.12.0-1``,  ``1.12.0-0``,  ``1.10.0-0``,  ``1.8.0-0``,  ``1.6.0-1``,  ``1.4.0-0``

      
      .. raw:: html

         </details>
      

   
   :depends bioconductor-annotationhub: ``>=3.10.0,<3.11.0``
   :depends bioconductor-data-packages: ``>=20231203``
   :depends bioconductor-experimenthub: ``>=2.10.0,<2.11.0``
   :depends bioconductor-hdf5array: ``>=1.30.0,<1.31.0``
   :depends bioconductor-multiassayexperiment: ``>=1.28.0,<1.29.0``
   :depends bioconductor-s4vectors: ``>=0.40.0,<0.41.0``
   :depends bioconductor-summarizedexperiment: ``>=1.32.0,<1.33.0``
   :depends curl: 
   :depends r-base: ``>=4.3,<4.4.0a0``
   :requirements:

   .. rubric:: Installation

  You need a conda-compatible package manager
  (currently either `micromamba <https://mamba.readthedocs.io>`_, `mamba <https://mamba.readthedocs.io>`_, or `conda <https://docs.conda.io/projects/conda>`_)
  and the Bioconda channel already activated (see :ref:`set-up-channels`).

  While any of above package managers is fine, it is currently recommended to use either
  micromamba or mamba (see `here <https://mamba.readthedocs.io>`_ for installation instructions).
  We will show all commands using mamba below, but the arguments are the same for the two
  others.

  Given that you already have a conda environment in which you want to have this package, install with::

      mamba install bioconductor-curatedtcgadata

   and update with::

      mamba update bioconductor-curatedtcgadata

  To create a new environment, run::

      mamba create --name myenvname bioconductor-curatedtcgadata

  with ``myenvname`` being a reasonable name for the environment
  (see e.g. the `mamba docs <https://mamba.readthedocs.io>`_ for details and further options).

  Alternatively, use the docker container::

      docker pull quay.io/biocontainers/bioconductor-curatedtcgadata:<tag>

   (see `bioconductor-curatedtcgadata/tags`_ for valid values for ``<tag>``)


.. |downloads_bioconductor-curatedtcgadata| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-curatedtcgadata.svg?style=flat
   :target: https://anaconda.org/bioconda/bioconductor-curatedtcgadata
   :alt:   (downloads)
.. |docker_bioconductor-curatedtcgadata| image:: https://quay.io/repository/biocontainers/bioconductor-curatedtcgadata/status
   :target: https://quay.io/repository/biocontainers/bioconductor-curatedtcgadata
.. _`bioconductor-curatedtcgadata/tags`: https://quay.io/repository/biocontainers/bioconductor-curatedtcgadata?tab=tags


.. raw:: html

    <script>
        var package = "bioconductor-curatedtcgadata";
        var versions = ["1.24.0","1.22.2","1.20.0","1.16.0","1.16.0"];
    </script>






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-----------------

.. raw:: html
    :file: ../../templates/package_dashboard.html

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