comparison w4mcorcov.xml @ 7:066b1f409e9f draft

planemo upload for repository https://github.com/HegemanLab/w4mcorcov_galaxy_wrapper/tree/master commit e73fabe1b3c871abbcb2e89914c181149c8e2066

6:7bd523ca1f9a

<tool id="w4mcorcov" name="OPLS-DA_Contrasts" version="0.98.10">

  <description>OPLS-DA Contrasts of Univariate Results</description>

  <macros>
    <xml name="paramPairSigFeatOnly">

          <has_text text="vip4p" />
          <has_text text="vip4o" />
          <has_text text="level1Level2Sig" />
          <!-- first matched line -->
          <has_text text="M349.2383T700" />
          <has_text text="-0.04051509" />
          <has_text text="-0.001964912" />
          <has_text text="0.02106343" />
          <has_text text="0.2446366813" />
          <!-- second matched line -->
          <has_text text="M207.9308T206" />
          <has_text text="0.504885262" />
          <has_text text="0.020749097" />
          <has_text text="0.207196379" />
          <has_text text="0.04438632" />
          <!-- third matched line -->
          <has_text text="M211.0607T263" />
          <has_text text="0.0680900" />
          <has_text text="0.0020163" />
          <has_text text="0.0201345" />
          <has_text text="0.0690773" />
        </assert_contents>
      </output>
      <output name="contrast_salience">
        <assert_contents>
          <!-- column-labels line -->

          <has_text text="vip4p" />
          <has_text text="vip4o" />
          <has_text text="level1Level2Sig" />
          <!-- first matched line -->
          <has_text text="M200.005T296" />
          <has_text text="-0.2803571" />
          <has_text text="-0.0115899" />
          <has_text text="0.1157346" />
          <has_text text="0.0647860" />
        </assert_contents>
      </output>
      <output name="contrast_salience">

          <has_text text="covariance" />
          <has_text text="vip4p" />
          <has_text text="vip4o" />
          <!-- first matched line -->
          <has_text text="M349.2383T700" />
          <has_text text="-0.4732226" />
          <has_text text="-0.0506172" />
          <has_text text="0.5246766" />
          <has_text text="0.0103341" />
          <!-- second matched line -->
          <has_text text="M207.9308T206" />
          <has_text text="0.4927151" />
          <has_text text="0.0203715" />
          <has_text text="0.2111623" />
          <has_text text="0.0488654" />
        </assert_contents>
      </output>
      <output name="contrast_salience">

          <has_text text="vip4o" />
          <!-- first matched line -->
          <has_text text="NM516T251" />
          <has_text text="flower_yes" />
          <has_text text="other" />
          <has_text text="0.3490559" />
          <has_text text="0.0260147" />
          <has_text text="0.4377872" />
          <has_text text="0.5916089" />
          <has_text text="0.0260147" />
          <has_text text="0.0438942" />
          <has_text text="516.0845" />
          <has_text text="250.8762" />
        </assert_contents>
      </output>
      <output name="contrast_salience">

OPLS-DA, SIMCA, and S-PLOT are registered trademarks of the Umetrics company.  http://umetrics.com/about-us/trademarks


Release notes
-------------

0.98.10

- new feature: C-plots of VIP versus correlation or relative covariance.
- bug fix: Handle issue 2 - features now are only pareto-scaled per Wikland *op cit.*.

7:066b1f409e9f

<tool id="w4mcorcov" name="OPLS-DA_Contrasts" version="0.98.11">

  <description>OPLS-DA Contrasts of Univariate Results</description>

  <macros>
    <xml name="paramPairSigFeatOnly">

          <has_text text="vip4p" />
          <has_text text="vip4o" />
          <has_text text="level1Level2Sig" />
          <!-- first matched line -->
          <has_text text="M349.2383T700" />
          <has_text text="-0.3704185" />
          <has_text text="-36.6668927" />
          <has_text text="0.4914638" />
          <has_text text="0.01302117" />
          <!-- second matched line -->
          <has_text text="M207.9308T206" />
          <has_text text="0.3235022" />
          <has_text text="5.97529097" />
          <has_text text="0.207196379" />
          <has_text text="0.04438632" />
        </assert_contents>
      </output>
      <output name="contrast_salience">
        <assert_contents>
          <!-- column-labels line -->

          <has_text text="vip4p" />
          <has_text text="vip4o" />
          <has_text text="level1Level2Sig" />
          <!-- first matched line -->
          <has_text text="M200.005T296" />
          <has_text text="-0.24533821" />
          <has_text text="-3.3573953" />
          <has_text text="0.1157346" />
          <has_text text="0.0647860" />
        </assert_contents>
      </output>
      <output name="contrast_salience">

          <has_text text="covariance" />
          <has_text text="vip4p" />
          <has_text text="vip4o" />
          <!-- first matched line -->
          <has_text text="M349.2383T700" />
          <has_text text="-0.37867079" />
          <has_text text="-37.71066" />
          <has_text text="0.5246766" />
          <has_text text="0.0103341" />
          <!-- second matched line -->
          <has_text text="M207.9308T206" />
          <has_text text="0.31570433" />
          <has_text text="5.86655640" />
          <has_text text="0.2111623" />
          <has_text text="0.0488654" />
        </assert_contents>
      </output>
      <output name="contrast_salience">

          <has_text text="vip4o" />
          <!-- first matched line -->
          <has_text text="NM516T251" />
          <has_text text="flower_yes" />
          <has_text text="other" />
          <has_text text="0.03402807" />
          <has_text text="0.03526926" />
          <has_text text="0.43664386" />
          <has_text text="0.587701897" />
          <has_text text="0.026082688" />
          <has_text text="0.0437742145" />
          <has_text text="516.0845" />
          <has_text text="250.8762" />
        </assert_contents>
      </output>
      <output name="contrast_salience">

OPLS-DA, SIMCA, and S-PLOT are registered trademarks of the Umetrics company.  http://umetrics.com/about-us/trademarks


Release notes
-------------

0.98.11

- bug fix: Readdress issue 2 - features now are pareto-scaled *and centered* per Wikland *op cit.*.

0.98.10

- new feature: C-plots of VIP versus correlation or relative covariance.
- bug fix: Handle issue 2 - features now are only pareto-scaled per Wikland *op cit.*.