.. DO NOT EDIT.
.. THIS FILE WAS AUTOMATICALLY GENERATED BY SPHINX-GALLERY.
.. TO MAKE CHANGES, EDIT THE SOURCE PYTHON FILE:
.. "auto_examples/plot_fastqc_hist.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_fastqc_hist.py>`
        to download the full example code.

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

.. _sphx_glr_auto_examples_plot_fastqc_hist.py:


Quality histogram a la fastQC
=================================

.. GENERATED FROM PYTHON SOURCE LINES 9-10

Get a data set example

.. GENERATED FROM PYTHON SOURCE LINES 10-15

.. code-block:: Python

    from sequana import sequana_data

    dataset = sequana_data("test.fastq.gz")









.. GENERATED FROM PYTHON SOURCE LINES 16-17

Create a FastQC instance

.. GENERATED FROM PYTHON SOURCE LINES 17-21

.. code-block:: Python

    from sequana import FastQC

    qc = FastQC(dataset, verbose=False)








.. GENERATED FROM PYTHON SOURCE LINES 22-23

plot the histogram

.. GENERATED FROM PYTHON SOURCE LINES 23-24

.. code-block:: Python

    qc.boxplot_quality()



.. image-sg:: /auto_examples/images/sphx_glr_plot_fastqc_hist_001.png
   :alt: Quality scores across all bases
   :srcset: /auto_examples/images/sphx_glr_plot_fastqc_hist_001.png
   :class: sphx-glr-single-img






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

   **Total running time of the script:** (0 minutes 0.106 seconds)


.. _sphx_glr_download_auto_examples_plot_fastqc_hist.py:

.. only:: html

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

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

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

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

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

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

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


.. only:: html

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

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