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6
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1 <tool id="testDiffExpAnal" name="Differential Expression Analysis">
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2 <description>Differential expression analysis for sequence count data (DESeq)</description>
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3 <command interpreter="sh"> ../DiffExpAnal/testR.sh $inputFile $columnsOfGeneName $columnsOfCondition1 $columnsOfCondition2 $outputFileCSV $outputFilePNG 2>$outputLog </command>
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4 <inputs>
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5 <param name="inputFile" type="data" label="Input File" format="tabular"/>
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6 <param name="columnsOfGeneName" type="text" value="0" label="Please indicate the column numbers of gene names with ',' separator. If There are not gene names, default value is 0."/>
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7 <param name="columnsOfCondition1" type="text" value="1,2" label="Please indicate the column numbers of condition1 with ',' separator."/>
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8 <param name="columnsOfCondition2" type="text" value="3,4" label="Please indicate the column numbers of condition2 with ',' separator."/>
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9 </inputs>
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10
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11 <outputs>
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12 <data format="tabular" name="outputFileCSV" label="[DiffExpAnal] Output CSV File"/>
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13 <data format="png" name="outputFilePNG" label="[DiffExpAnal] Output PNG File"/>
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14 <data format="tabular" name="outputLog" label="[DiffExpAnal] Log File"/>
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15 </outputs>
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16
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17 <help>
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18 </help>
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19 </tool>
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