Mercurial > repos > florianbegusch > qiime2_wrappers
comparison qiime2/qiime_gneiss_correlation-clustering.xml @ 2:149432539226 draft
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| author | florianbegusch |
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| date | Wed, 17 Jul 2019 01:49:31 -0400 |
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| 1:6851c25d84b7 | 2:149432539226 |
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| 1 <?xml version="1.0" ?> | |
| 2 <tool id="qiime_gneiss_correlation-clustering" name="qiime gneiss correlation-clustering" version="2019.4"> | |
| 3 <description> - Hierarchical clustering using feature correlation.</description> | |
| 4 <requirements> | |
| 5 <requirement type="package" version="2019.4">qiime2</requirement> | |
| 6 </requirements> | |
| 7 <command><![CDATA[ | |
| 8 qiime gneiss correlation-clustering | |
| 9 | |
| 10 --i-table=$itable | |
| 11 | |
| 12 #if $ppseudocount: | |
| 13 --p-pseudocount=$ppseudocount | |
| 14 #end if | |
| 15 | |
| 16 --o-clustering=oclustering | |
| 17 ; | |
| 18 cp oclustering.qza $oclustering | |
| 19 ]]></command> | |
| 20 <inputs> | |
| 21 <param format="qza,no_unzip.zip" label="--i-table: ARTIFACT FeatureTable[Frequency] The feature table containing the samples in which the columns will be clustered. [required]" name="itable" optional="False" type="data"/> | |
| 22 <param label="--p-pseudocount: NUMBER The value to add to zero counts in the feature table. [default: 0.5]" name="ppseudocount" optional="True" type="float" value="0.5"/> | |
| 23 </inputs> | |
| 24 <outputs> | |
| 25 <data format="qza" label="${tool.name} on ${on_string}: clustering.qza" name="oclustering"/> | |
| 26 </outputs> | |
| 27 <help><![CDATA[ | |
| 28 Hierarchical clustering using feature correlation. | |
| 29 ################################################## | |
| 30 | |
| 31 Build a bifurcating tree that represents a hierarchical clustering of | |
| 32 features. The hiearchical clustering uses Ward hierarchical clustering | |
| 33 based on the degree of proportionality between features. | |
| 34 | |
| 35 Parameters | |
| 36 ---------- | |
| 37 table : FeatureTable[Frequency] | |
| 38 The feature table containing the samples in which the columns will be | |
| 39 clustered. | |
| 40 pseudocount : Float, optional | |
| 41 The value to add to zero counts in the feature table. | |
| 42 | |
| 43 Returns | |
| 44 ------- | |
| 45 clustering : Hierarchy | |
| 46 A hierarchy of feature identifiers where each tip corresponds to the | |
| 47 feature identifiers in the table. This tree can contain tip ids that | |
| 48 are not present in the table, but all feature ids in the table must be | |
| 49 present in this tree. | |
| 50 ]]></help> | |
| 51 <macros> | |
| 52 <import>qiime_citation.xml</import> | |
| 53 </macros> | |
| 54 <expand macro="qiime_citation"/> | |
| 55 </tool> |