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Scripts: BAR 1.1.6

Tiago Ferreira; Kota Miura; Bitdeli Chef; Jan Eglinger


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  <identifier identifierType="DOI">10.5281/zenodo.28838</identifier>
  <creators>
    <creator>
      <creatorName>Tiago Ferreira</creatorName>
      <affiliation>McGill University</affiliation>
    </creator>
    <creator>
      <creatorName>Kota Miura</creatorName>
      <affiliation>EMBL</affiliation>
    </creator>
    <creator>
      <creatorName>Bitdeli Chef</creatorName>
      <affiliation>Bitdeli</affiliation>
    </creator>
    <creator>
      <creatorName>Jan Eglinger</creatorName>
      <affiliation>Friedrich Miescher Institute for Biomedical Research</affiliation>
    </creator>
  </creators>
  <titles>
    <title>Scripts: BAR 1.1.6</title>
  </titles>
  <publisher>Zenodo</publisher>
  <publicationYear>2015</publicationYear>
  <dates>
    <date dateType="Issued">2015-08-21</date>
  </dates>
  <resourceType resourceTypeGeneral="Software"/>
  <alternateIdentifiers>
    <alternateIdentifier alternateIdentifierType="url">https://zenodo.org/record/28838</alternateIdentifier>
  </alternateIdentifiers>
  <relatedIdentifiers>
    <relatedIdentifier relatedIdentifierType="URL" relationType="IsSupplementTo">https://github.com/tferr/Scripts/tree/1.1.6</relatedIdentifier>
    <relatedIdentifier relatedIdentifierType="DOI" relationType="IsVersionOf">10.5281/zenodo.597784</relatedIdentifier>
    <relatedIdentifier relatedIdentifierType="URL" relationType="IsPartOf">https://zenodo.org/communities/zenodo</relatedIdentifier>
  </relatedIdentifiers>
  <version>1.1.6</version>
  <rightsList>
    <rights rightsURI="info:eu-repo/semantics/openAccess">Open Access</rights>
  </rightsList>
  <descriptions>
    <description descriptionType="Abstract">&lt;ul&gt;
&lt;li&gt;Routines:

&lt;ul&gt;
&lt;li&gt;New script: &lt;a href="./Data_Analysis/README.md#create-boxplot"&gt;Create Boxplot&lt;/a&gt;, a BeanShell script that creates box-and-whisker plots from ImageJ measurements&lt;/li&gt;
&lt;li&gt;
&lt;a href="https://github.com/tferr/Scripts/tree/master/Data_Analysis#plot-results"&gt;Plot Results&lt;/a&gt; has been re-written: It is now a full-fledged interactive plotting GUI&lt;/li&gt;
&lt;li&gt;Updated &lt;a href="https://github.com/tferr/Scripts/tree/master/Tools#roi-manager-tools"&gt;ROI Manager Tools&lt;/a&gt; for IJ 1.45b (The ROI Manager can now store ROIs with the same name).&lt;/li&gt;
&lt;/ul&gt;
&lt;/li&gt;
&lt;li&gt;API:

&lt;ul&gt;
&lt;li&gt;New class &lt;a href="./BAR/src/main/java/bar/PlotUtils.java"&gt;PlotUtils&lt;/a&gt; (&lt;a href="http://tferr.github.io/Scripts/apidocs/index.html?bar/PlotUtils.html"&gt;Javadoc&lt;/a&gt;), providing utility methods for plotting operations, including exporting of JFreeChart plots as vector graphics (PDF or SVG)&lt;/li&gt;
&lt;li&gt;Added new methods to the &lt;a href="./BAR/src/main/java/bar/Utils.java"&gt;Utils&lt;/a&gt; class for interacting with the ImageJ Results table (&lt;a href="http://tferr.github.io/Scripts/apidocs/index.html?bar/Utils.html"&gt;Javadoc&lt;/a&gt;)&lt;/li&gt;
&lt;/ul&gt;
&lt;/li&gt;
&lt;li&gt;Bug Fixes:

&lt;ul&gt;
&lt;li&gt;Fixed an &lt;a href="https://github.com/imagej/imagej-updater/pull/48"&gt;issue&lt;/a&gt; that did not allow &lt;a href="https://github.com/tferr/Scripts/tree/master/lib#gvy-lib"&gt;Groovy lib&lt;/a&gt; to be recognized by the ImageJ updater&lt;/li&gt;
&lt;li&gt;Fixed an issue in which &lt;a href="https://github.com/tferr/Scripts/tree/master/Data_Analysis#create-boxplot"&gt;Clipboard to Results&lt;/a&gt;  could terminate a calling script&lt;/li&gt;
&lt;li&gt;Fixed an issue (#13) in &lt;a href="https://github.com/tferr/Scripts/tree/master/Tools#roi-manager-tools"&gt;ROI Manager Tools&lt;/a&gt; in which labels were not properly reset&lt;/li&gt;
&lt;li&gt;Suppressed the &amp;quot;Ignoring unsupported output&amp;quot; Consoled warnings triggered by several routines&lt;/li&gt;
&lt;li&gt;Fixed and issue that in which exiting messages  of &lt;a href="./Segmentation/"&gt;Segmentation macros&lt;/a&gt; could not be read in the ImageJ status bar&lt;/li&gt;
&lt;/ul&gt;
&lt;/li&gt;
&lt;li&gt;Documentation:

&lt;ul&gt;
&lt;li&gt;Updated &lt;a href="http://tferr.github.io/Scripts/apidocs/"&gt;API&lt;/a&gt;, &lt;a href="https://github.com/tferr/Scripts/#ij-bar"&gt;Markdown&lt;/a&gt;, and &lt;a href="http://fiji.sc/BAR"&gt;User&lt;/a&gt; documentation&lt;/li&gt;
&lt;/ul&gt;
&lt;/li&gt;
&lt;/ul&gt;</description>
  </descriptions>
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