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1 <?xml version="1.0" ?>
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2 <tool id="qiime_composition_add-pseudocount" name="qiime composition add-pseudocount" version="2019.4">
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3 <description> - Add pseudocount to table</description>
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4 <requirements>
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5 <requirement type="package" version="2019.4">qiime2</requirement>
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6 </requirements>
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7 <command><![CDATA[
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8 qiime composition add-pseudocount
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9
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10 --i-table=$itable
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11 --o-composition-table=ocompositiontable
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12
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5
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13 #if str($ppseudocount):
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0
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14 --p-pseudocount=$ppseudocount
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15 #end if
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16 ;
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17 cp ocompositiontable.qza $ocompositiontable
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18 ]]></command>
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19 <inputs>
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20 <param format="qza,no_unzip.zip" label="--i-table: ARTIFACT FeatureTable[Frequency] The feature table to which pseudocounts should be added. [required]" name="itable" optional="False" type="data"/>
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21 <param label="--p-pseudocount: INTEGER The value to add to all counts in the feature table. [default: 1]" name="ppseudocount" optional="True" type="integer" value="1"/>
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22 </inputs>
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23 <outputs>
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24 <data format="qza" label="${tool.name} on ${on_string}: compositiontable.qza" name="ocompositiontable"/>
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25 </outputs>
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26 <help><![CDATA[
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27 Add pseudocount to table
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28 ########################
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29
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30 Increment all counts in table by pseudocount.
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31
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32 Parameters
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33 ----------
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34 table : FeatureTable[Frequency]
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35 The feature table to which pseudocounts should be added.
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36 pseudocount : Int, optional
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37 The value to add to all counts in the feature table.
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38
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39 Returns
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40 -------
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41 composition_table : FeatureTable[Composition]
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42 The resulting feature table.
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43 ]]></help>
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44 <macros>
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45 <import>qiime_citation.xml</import>
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46 </macros>
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47 <expand macro="qiime_citation"/>
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48 </tool>
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