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1 <?xml version="1.0" ?>
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2 <tool id="qiime_feature-table_presence-absence" name="qiime feature-table presence-absence" version="2018.4">
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3 <description> - Convert to presence/absence</description>
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4 <requirements>
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5 <requirement type="package" version="2018.4">qiime2</requirement>
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6 </requirements>
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7 <command>
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8 <![CDATA[
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9 qiime feature-table presence-absence --i-table=$itable
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10
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11 #if str($cmdconfig) != 'None':
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12 --cmd-config=$cmdconfig
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13 #end if
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14 --o-presence-absence-table=opresenceabsencetable;
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15
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16 cp opresenceabsencetable.qza $opresenceabsencetable;
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17 ]]>
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18 </command>
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19 <inputs>
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20 <param format="qza,no_unzip.zip" label="--i-table: FeatureTable[Frequency | RelativeFrequency] The feature table to be converted into presence/absence abundances. [required]" name="itable" optional="False" type="data"/>
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21 <param label="--cmd-config: Use config file for command options" name="cmdconfig" optional="True" type="data"/>
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22 </inputs>
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23 <outputs>
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24 <data format="qza" label="${tool.name} on ${on_string}: presence-absence-table.qza" name="opresenceabsencetable"/>
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25 </outputs>
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26 <help>
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27 <![CDATA[
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28 Convert to presence/absence
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29 ----------------------------
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30
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31 Convert frequencies to binary values indicating presence or absence of a
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32 feature in a sample.
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33
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34 Parameters
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35 ----------
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36 table : FeatureTable[Frequency | RelativeFrequency]
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37 The feature table to be converted into presence/absence abundances.
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38
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39 Returns
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40 -------
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41 presence_absence_table : FeatureTable[PresenceAbsence]
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42 The resulting presence/absence feature table.
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43 ]]>
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44 </help>
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45 <macros>
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46 <import>qiime_citation.xml</import>
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47 </macros>
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48 <expand macro="qiime_citation" />
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49 </tool>
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