Mercurial > repos > florianbegusch > qiime2_suite
diff qiime2-2020.8/qiime_gneiss_correlation-clustering.xml @ 20:d93d8888f0b0 draft
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author | florianbegusch |
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date | Fri, 04 Sep 2020 12:44:24 +0000 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime2-2020.8/qiime_gneiss_correlation-clustering.xml Fri Sep 04 12:44:24 2020 +0000 @@ -0,0 +1,65 @@ +<?xml version="1.0" ?> +<tool id="qiime_gneiss_correlation-clustering" name="qiime gneiss correlation-clustering" + version="2020.8"> + <description>Hierarchical clustering using feature correlation.</description> + <requirements> + <requirement type="package" version="2020.8">qiime2</requirement> + </requirements> + <command><![CDATA[ +qiime gneiss correlation-clustering + +--i-table=$itable + +--p-pseudocount=$ppseudocount + +--o-clustering=oclustering + +#if str($examples) != 'None': +--examples=$examples +#end if + +; +cp oclustering.qza $oclustering + + ]]></command> + <inputs> + <param format="qza,no_unzip.zip" label="--i-table: ARTIFACT FeatureTable[Frequency] The feature table containing the samples in which the columns will be clustered. [required]" name="itable" optional="False" type="data" /> + <param label="--p-pseudocount: NUMBER The value to add to zero counts in the feature table. [default: 0.5]" name="ppseudocount" optional="True" type="float" value="0.5" /> + <param label="--examples: Show usage examples and exit." name="examples" optional="False" type="data" /> + + </inputs> + + <outputs> + <data format="qza" label="${tool.name} on ${on_string}: clustering.qza" name="oclustering" /> + + </outputs> + + <help><![CDATA[ +Hierarchical clustering using feature correlation. +############################################################### + +Build a bifurcating tree that represents a hierarchical clustering of +features. The hiearchical clustering uses Ward hierarchical clustering +based on the degree of proportionality between features. + +Parameters +---------- +table : FeatureTable[Frequency] + The feature table containing the samples in which the columns will be + clustered. +pseudocount : Float, optional + The value to add to zero counts in the feature table. + +Returns +------- +clustering : Hierarchy + A hierarchy of feature identifiers where each tip corresponds to the + feature identifiers in the table. This tree can contain tip ids that + are not present in the table, but all feature ids in the table must be + present in this tree. + ]]></help> + <macros> + <import>qiime_citation.xml</import> + </macros> + <expand macro="qiime_citation"/> +</tool> \ No newline at end of file