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46
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1 <section id="s_mart" name="S-MART" version="3.0">
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2 <label id="Smart_Comparison" text="Comparison Tools" version="3.0"/>
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3 <tool file="s_mart/CompareOverlappingAdapt.xml"/>
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36
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4 <tool file="s_mart/getDifference.xml"/>
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5 <tool file="s_mart/computeCoverage.xml"/>
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6 <tool file="s_mart/GetFlanking.xml"/>
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7 <tool file="s_mart/GetDifferentialExpression.xml"/>
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46
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8 <label id="Smart_Merge" text="Merge Tools" version="3.0"/>
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36
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9 <tool file="s_mart/clusterize.xml"/>
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10 <tool file="s_mart/mergeTranscriptLists.xml"/>
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11 <tool file="s_mart/CollapseReads.xml"/>
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12 <tool file="s_mart/clusterizeBySlidingWindows.xml"/>
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13 <tool file="s_mart/mergeSlidingWindowsClusters.xml"/>
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46
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14 <label id="Smart_Visualization" text="Visualization Tools" version="3.0"/>
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36
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15 <tool file="s_mart/getDistribution.xml"/>
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16 <tool file="s_mart/getDistance.xml"/>
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17 <tool file="s_mart/getSizes.xml"/>
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18 <tool file="s_mart/plotCoverage.xml"/>
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19 <tool file="s_mart/WrappGetLetterDistribution1.xml"/>
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20 <tool file="s_mart/plotTranscriptList.xml"/>
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46
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21 <label id="Smart_Sequence" text="Sequence Tools" version="3.0"/>
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36
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22 <tool file="s_mart/CountReadGCPercent.xml"/>
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46
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23 <label id="Smart_Modification" text="Modification Tools" version="3.0"/>
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36
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24 <tool file="s_mart/modifyGenomicCoordinates.xml"/>
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25 <tool file="s_mart/modifySequenceList.xml"/>
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26 <tool file="s_mart/trimSequences.xml"/>
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46
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27 <label id="Smart_Selection" text="Selection Tools" version="3.0"/>
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36
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28 <tool file="s_mart/getExons.xml"/>
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29 <tool file="s_mart/getIntrons.xml"/>
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30 <tool file="s_mart/restrictFromSize.xml"/>
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31 <tool file="s_mart/restrictTranscriptList.xml"/>
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46
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32 <label id="Smart_Conversion" text="Conversion Tools" version="3.0"/>
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36
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33 <tool file="s_mart/ConvertTranscriptFile.xml"/>
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34 <tool file="s_mart/coordinatesToSequence.xml"/>
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35 <tool file="s_mart/mapperAnalyzer.xml"/>
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46
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36 <label id="Smart_WIG" text="WIG Manipulation Tools" version="3.0"/>
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36
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37 <tool file="s_mart/getWigData.xml"/>
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38 <tool file="s_mart/getWigDistance.xml"/>
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39 <tool file="s_mart/getWigProfile.xml"/>
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46
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40 <label id="Smart_GFF" text="GFF Manipulation Tools" version="3.0"/>
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36
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41 <tool file="s_mart/CleanTranscriptFile.xml"/>
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42 <tool file="s_mart/changeTagName.xml"/>
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43 <tool file="s_mart/changeGffFeatures.xml"/>
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44 <tool file="s_mart/SelectByTag.xml"/>
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45 </section>
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