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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"
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3 version="2020.8">
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4 <description>Add pseudocount to table</description>
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5 <requirements>
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6 <requirement type="package" version="2020.8">qiime2</requirement>
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7 </requirements>
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8 <command><![CDATA[
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9 qiime composition add-pseudocount
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10
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11 --i-table=$itable
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12
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13 --p-pseudocount=$ppseudocount
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14
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15 --o-composition-table=ocompositiontable
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16
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17 #if str($examples) != 'None':
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18 --examples=$examples
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19 #end if
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20
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21 ;
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22 cp ocompositiontable.qza $ocompositiontable
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23
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24 ]]></command>
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25 <inputs>
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26 <param format="qza,no_unzip.zip" label="--i-table: ARTIFACT FeatureTable[Frequency] The feature table to which pseudocounts should be added. [required]" name="itable" optional="False" type="data" />
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27 <param label="--p-pseudocount: INTEGER The value to add to all counts in the feature table. [default: 1]" name="ppseudocount" optional="True" type="integer" value="1" />
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28 <param label="--examples: Show usage examples and exit." name="examples" optional="False" type="data" />
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29
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30 </inputs>
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31
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32 <outputs>
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33 <data format="qza" label="${tool.name} on ${on_string}: compositiontable.qza" name="ocompositiontable" />
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34
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35 </outputs>
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36
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37 <help><![CDATA[
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38 Add pseudocount to table
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39 ###############################################################
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40
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41 Increment all counts in table by pseudocount.
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42
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43 Parameters
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44 ----------
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45 table : FeatureTable[Frequency]
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46 The feature table to which pseudocounts should be added.
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47 pseudocount : Int, optional
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48 The value to add to all counts in the feature table.
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49
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50 Returns
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51 -------
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52 composition_table : FeatureTable[Composition]
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53 The resulting feature table.
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54 ]]></help>
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55 <macros>
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56 <import>qiime_citation.xml</import>
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57 </macros>
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58 <expand macro="qiime_citation"/>
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59 </tool> |
