<?xml version='1.0' encoding='utf-8' ?>
<!DOCTYPE revhistory [

<!ENTITY % entities SYSTEM "entities.ent">
%entities;
]>

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


<revision>
  <revnumber>
    11.1.0
  </revnumber>

  <date>
    March 2026
  </date>

  <authorinitials>
    fr
  </authorinitials>

  <revremark>

    Update the documentation to describe the new centroid extraction and
    low mass deconvolver features.

  </revremark>

</revision>

<revision>
  <revnumber>
    11.0.0
  </revnumber>

  <date>
    January 2026
  </date>

  <authorinitials>
    fr
  </authorinitials>

  <revremark>

    Update the documentation to describe the new application
    preferences feature and the new vertical rule x-axis label in the plot
    windows.

  </revremark>

</revision>

  <revision>
    <revnumber>
      10.2.0
    </revnumber>

    <date>
      November 2025
    </date>

    <authorinitials>
      fr
    </authorinitials>

    <revremark>
      Update the documentation to describe the new deconvolution processes.
    </revremark>
  </revision>

  <revision>
    <revnumber>
      10.1.1
    </revnumber>

    <date>
      November 2025
    </date>

    <authorinitials>
      fr
    </authorinitials>

    <revremark>
      Update the documentation about specifying the format of analysis session discoveries,
      in particular abour the new feature that let's the user define the number
      of decimals to be used when printing out float values.
    </revremark>
  </revision>


  <revision>
    <revnumber>
       10.1.0
     </revnumber>

   <date>
       November 2025
     </date>

   <authorinitials>
       fr
     </authorinitials>

   <revremark>
       Full port of &MineXp; to the new &XpMass; project's libraries. Add new chapter on JavaScript features now in &MineXp;.
     </revremark>
  </revision>


  <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 &MineXp;2 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
            &MineXp;2 and could finally be implemented these last weeks.

        </para></listitem>

        <listitem><para>

            Mention the bibliographic reference to the newly accepted article
            about &MineXp;2 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 &MineXp;2.

      </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>


