Mercurial > repos > timpalpant > java_genomics_toolkit

annotate resources/toolConf.xml @ 2:e16016635b2a

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author timpalpant
date Mon, 13 Feb 2012 22:12:06 -0500
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1 <?xml version="1.0" encoding="UTF-8"?>
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2 <!-- This is the tool configuration file for the ToolRunner GUI -->
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3 <tools>
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4 <section name="Converters">
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5 <tool name="IntervalToWig" class="edu.unc.genomics.converters.IntervalToWig" />
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6 <tool name="RomanNumeralize" class="edu.unc.genomics.converters.RomanNumeralize" />
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7 </section>
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8
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9 <section name="NGS">
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10 <tool name="Autocorrelation" class="edu.unc.genomics.ngs.Autocorrelation" />
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11 <tool name="BaseAlignCounts" class="edu.unc.genomics.ngs.BaseAlignCounts" />
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12 <tool name="FindAbsoluteMaxima" class="edu.unc.genomics.ngs.FindAbsoluteMaxima" />
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13 <tool name="IntervalLengthDistribution" class="edu.unc.genomics.ngs.IntervalLengthDistribution" />
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14 <tool name="IntervalStats" class="edu.unc.genomics.ngs.IntervalStats" />
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15 <tool name="PowerSpectrum" class="edu.unc.genomics.ngs.PowerSpectrum" />
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16 <tool name="RollingReadLength" class="edu.unc.genomics.ngs.RollingReadLength" />
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17 </section>
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18
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19 <section name="Nucleosomes">
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20 <tool name="FindBoundaryNucleosomes" class="edu.unc.genomics.nucleosomes.FindBoundaryNucleosomes" />
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21 <tool name="GreedyCaller" class="edu.unc.genomics.nucleosomes.GreedyCaller" />
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22 <tool name="MapDyads" class="edu.unc.genomics.nucleosomes.MapDyads" />
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23 <tool name="NRLCalculator" class="edu.unc.genomics.nucleosomes.NRLCalculator" />
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24 <tool name="Phasogram" class="edu.unc.genomics.nucleosomes.Phasogram" />
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25 </section>
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26
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27 <section name="Visualization">
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28 <tool name="IntervalAverager" class="edu.unc.genomics.visualization.IntervalAverager" />
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29 <tool name="KMeans" class="edu.unc.genomics.visualization.KMeans" />
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30 <tool name="MatrixAligner" class="edu.unc.genomics.visualization.MatrixAligner" />
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31 </section>
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32
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33 <section name="WigMath">
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34 <tool name="Add" class="edu.unc.genomics.wigmath.Add" />
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35 <tool name="Average" class="edu.unc.genomics.wigmath.Average" />
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36 <tool name="Divide" class="edu.unc.genomics.wigmath.Divide" />
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37 <tool name="GaussianSmooth" class="edu.unc.genomics.wigmath.GaussianSmooth" />
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38 <tool name="LogTransform" class="edu.unc.genomics.wigmath.LogTransform" />
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39 <tool name="MovingAverageSmooth" class="edu.unc.genomics.wigmath.MovingAverageSmooth" />
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40 <tool name="Multiply" class="edu.unc.genomics.wigmath.Multiply" />
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41 <tool name="Scale" class="edu.unc.genomics.wigmath.Scale" />
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42 <tool name="Subtract" class="edu.unc.genomics.wigmath.Subtract" />
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43 <tool name="WigSummary" class="edu.unc.genomics.wigmath.WigSummary" />
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44 <tool name="ZScore" class="edu.unc.genomics.wigmath.ZScore" />
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45 </section>
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46 </tools>