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1 <?xml version="1.0" ?>
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2 <tool id="qiime_gneiss_correlation-clustering" name="qiime gneiss correlation-clustering"
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3 version="2020.8">
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4 <description>Hierarchical clustering using feature correlation.</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 gneiss correlation-clustering
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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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15 --o-clustering=oclustering
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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 oclustering.qza $oclustering
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23
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24 ]]></command>
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25 <inputs>
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26 <param format="qza,no_unzip.zip" label="--i-table: ARTIFACT FeatureTable[Frequency] The feature table containing the samples in which the columns will be clustered. [required]" name="itable" optional="False" type="data" />
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27 <param label="--p-pseudocount: NUMBER The value to add to zero counts in the feature table. [default: 0.5]" name="ppseudocount" optional="True" type="float" value="0.5" />
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28 <param label="--examples: Show usage examples and exit." name="examples" optional="False" type="data" />
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29
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30 </inputs>
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31
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32 <outputs>
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33 <data format="qza" label="${tool.name} on ${on_string}: clustering.qza" name="oclustering" />
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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 Hierarchical clustering using feature correlation.
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39 ###############################################################
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40
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41 Build a bifurcating tree that represents a hierarchical clustering of
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42 features. The hiearchical clustering uses Ward hierarchical clustering
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43 based on the degree of proportionality between features.
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44
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45 Parameters
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46 ----------
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47 table : FeatureTable[Frequency]
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48 The feature table containing the samples in which the columns will be
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49 clustered.
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50 pseudocount : Float, optional
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51 The value to add to zero counts in the feature table.
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52
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53 Returns
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54 -------
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55 clustering : Hierarchy
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56 A hierarchy of feature identifiers where each tip corresponds to the
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57 feature identifiers in the table. This tree can contain tip ids that
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58 are not present in the table, but all feature ids in the table must be
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59 present in this tree.
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60 ]]></help>
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61 <macros>
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62 <import>qiime_citation.xml</import>
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63 </macros>
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64 <expand macro="qiime_citation"/>
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65 </tool> |
