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<revhistory xmlns="http://docbook.org/ns/docbook" version="5.0">

  <revision>

    <revnumber>9.3.1</revnumber>
    <date>December 2023</date>
    <authorinitials>fr</authorinitials>

    <revdescription>

      <itemizedlist>

        <listitem><para>

            Added brief documentation of the new MS run probing feature designed
            to allow the user to configure the loading of
            <productname>timsTOF</productname> MS run data from
            <productname>Bruker</productname>.

        </para></listitem>

      </itemizedlist>

    </revdescription>

  </revision>


  <revision>

    <revnumber>8.5.8</revnumber>
    <date>October 2022</date>
    <authorinitials>fr</authorinitials>

    <revdescription>

      <itemizedlist>

        <listitem><para>

            Entirely reworked the user manual to make it more modern from the
            coding point of view. The users do not see any difference with the
            previous version.

        </para></listitem>

      </itemizedlist>

    </revdescription>

  </revision>


  <revision>

    <revnumber>8.4.0</revnumber>
    <date>June 2022</date>
    <authorinitials>fr</authorinitials>

    <revdescription>

      <itemizedlist>

        <listitem><para>

            Update the user manual to document the fact that it is now possible
            to set the bin size even when computing color maps involving &mz; as
            one of their dimension.

        </para></listitem>

      </itemizedlist>

    </revdescription>

  </revision>

  <revision>

    <revnumber>8.3.0</revnumber>
    <date>June 2022</date>
    <authorinitials>fr</authorinitials>

    <revdescription>

      <itemizedlist>

        <listitem><para>

            Update the user manual with the description of the new plot ranges
            history resetting feature.

        </para></listitem>

      </itemizedlist>

    </revdescription>

  </revision>

  <revision>

    <revnumber>8.2.0</revnumber>
    <date>31 January 2022</date>
    <authorinitials>fr</authorinitials>

    <revdescription>

      <itemizedlist>

        <listitem><para>

            Update the user manual with the description of the new trace low
            signal threshold removal filter.

        </para></listitem>

      </itemizedlist>

    </revdescription>

  </revision>

  <revision>

    <revnumber>8.1.0</revnumber>
    <date>21 April 2021</date>
    <authorinitials>fr</authorinitials>

    <revdescription>

      <itemizedlist>

        <listitem><para>

            Update the user manual with the description of the new color map
            filters used to enhance the signal-to-noise ratio.

        </para></listitem>

      </itemizedlist>

    </revdescription>

  </revision>

  <revision>

    <revnumber>8.0.1</revnumber>
    <date>24 march 2021</date>
    <authorinitials>fr</authorinitials>

    <revdescription>

      <itemizedlist>

        <listitem><para>

            Update the user manual with a more explicit data set to illustrate the new skewed
            selection polygon.

        </para></listitem>

        <listitem><para>

            Mention the bibliographic reference to the newly accepted article
            about &mineXp2; in the Generalities chapter.

        </para></listitem>

      </itemizedlist>

    </revdescription>

  </revision>

  <revision>

    <revnumber>8.0.0</revnumber>
    <date>23 march 2021</date>
    <authorinitials>fr</authorinitials>

    <revdescription>

      <itemizedlist>

        <listitem><para>

            Update the user manual with a section pertaining to the new skewed
            selection polygon. That feature was asked months ago by  a user of
            &mineXp2; and could finally be implemented these last weeks.

        </para></listitem>

        <listitem><para>

            Mention the bibliographic reference to the newly accepted article
            about &mineXp2; in the Generalities chapter.

        </para></listitem>

      </itemizedlist>

    </revdescription>

  </revision>

  <revision>

    <revnumber>7.4.0</revnumber>
    <date>2 january 2021</date>
    <authorinitials>fr</authorinitials>

    <revdescription>

      <para>

        Happy new year ! With the writing of the new version of the Processing
        Flow chapter to match the new integration logging mechanisms in &mineXp2;.

      </para>

    </revdescription>

  </revision>

  <revision>

    <revnumber>7.4.0</revnumber>
    <date>december 2020</date>
    <authorinitials>fr</authorinitials>

    <revdescription>

      <para>

        This revision introduces updates to document the following new features.

        <itemizedlist>

          <listitem><para>

              User-definable limitation of the number of threads usable for the
              combination computations (good request from a reviewer of the
              article).

          </para></listitem>

          <listitem><para>

              GUI shortcut to the MS level to be targeted for the next
              integration (good request from a reviewer of the article).

          </para></listitem>

        </itemizedlist>

      </para>

      <para>

        Document the build and installation of the software (another good
        request from a reviewer).

      </para>

    </revdescription>

  </revision>

  <revision>
    <revnumber>7.0.1</revnumber>
    <date>october 2020</date>
    <authorinitials>fr</authorinitials>

    <revremark>

      Update of the user manual to document the new combine+ and combine-
      combinations features.

    </revremark>

  </revision>

  <revision>
    <revnumber>7.0.0</revnumber>
    <date>september 2020</date>
    <authorinitials>fr</authorinitials>

    <revremark>

      Update of the user manual to document new features, in particular the
      MS<superscript>n</superscript> mass spectrometric data mining and new mass
      data plotting features.

    </revremark>

  </revision>

  <revision>
    <revnumber>6.0.0</revnumber>
    <date>january 2020</date>
    <authorinitials>fr</authorinitials>

    <revremark>

      Full rewrite of the user manual to document the new mineXpert2 software
      program. The new mineXpert2 version is a full rewrite of the previous
      version such that it can handle MS<superscript>n</superscript> mass
      spectrometric data. Major features were included in the new version that
      are described in detail in this user manual.

    </revremark>

  </revision>

  <revision>
    <revnumber>5.8.2</revnumber>
    <date>february 2019</date>
    <authorinitials>fr</authorinitials>

    <revremark>

      Rework the IsoSpec-based isotopic clust calculations to better describe
      the three available processes. Also, describe the new FWHM calculation
      feature in the PeakShaperDlg.

    </revremark>

  </revision>

  <revision>
    <revnumber>5.8.0</revnumber>
    <date>end january 2019</date>
    <authorinitials>fr</authorinitials>

    <revremark>

      Add section to described the newly developed feature about isotopic
      cluster calculations based on the IsoSpec library;

    </revremark>

  </revision>

  <revision>
    <revnumber>5.7.0</revnumber>
    <date>beginning january 2019</date>
    <authorinitials>fr</authorinitials>

    <revremark>

      Finished porting of the historical LaTeX-based documentation to the
      DocBook/DAPS/FOP publishing system. Please, see Colophon for details;

    </revremark>

  </revision>

  <revision>
    <revnumber>not_set</revnumber>
    <date>september 2018</date>
    <authorinitials>fr</authorinitials>

    <revremark>Update the document to include new features and to make fixes.
    Insist on the fact that mineXpert reads mzML data files. </revremark>

</revision>

<revision>
  <revnumber>not_set</revnumber>
  <date>march 2018</date>
  <authorinitials>fr</authorinitials>

  <revremark>Update the document to include new m/z~integration features and
  scripting capabilities.</revremark>

</revision>

<revision>
  <revnumber>not_set</revnumber>
  <date>december 2016</date>
  <authorinitials>fr</authorinitials>

  <revremark>Major rewriting of the document to incorporate all the new
  features. Large chapter on the scripting of mineXpert. </revremark>

</revision>

<revision>
  <revnumber>not_set</revnumber>
  <date>december 2017</date>
  <authorinitials>fr</authorinitials>

  <revremark>Refactored document. First version documenting almost all the of
  current features of the software program. </revremark>

  </revision>

  <revision>
    <revnumber>not_set</revnumber>
    <date>may 2017</date>
    <authorinitials>fr</authorinitials>

    <revremark> Refactored document. First version documenting almost all the of
    current features of the mineXpert software program. </revremark>

</revision>

<revision>
  <revnumber>not_set</revnumber>
  <date>november 2016</date>
  <authorinitials>fr</authorinitials>

  <revremark>Resume writing, with new program name: mineXpert.</revremark>

</revision>

<revision>
  <revnumber>not_set</revnumber>
  <date>september 2016</date>
  <authorinitials>fr</authorinitials>

  <revremark>Start of writing.</revremark>

</revision>

</revhistory>


