Mercurial > repos > florianbegusch > qiime2_wrappers
diff qiime2/qiime_gneiss_correlation-clustering.xml @ 2:149432539226 draft
Uploaded
author | florianbegusch |
---|---|
date | Wed, 17 Jul 2019 01:49:31 -0400 |
parents | |
children |
line wrap: on
line diff
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime2/qiime_gneiss_correlation-clustering.xml Wed Jul 17 01:49:31 2019 -0400 @@ -0,0 +1,55 @@ +<?xml version="1.0" ?> +<tool id="qiime_gneiss_correlation-clustering" name="qiime gneiss correlation-clustering" version="2019.4"> + <description> - Hierarchical clustering using feature correlation.</description> + <requirements> + <requirement type="package" version="2019.4">qiime2</requirement> + </requirements> + <command><![CDATA[ +qiime gneiss correlation-clustering + +--i-table=$itable + +#if $ppseudocount: + --p-pseudocount=$ppseudocount +#end if + +--o-clustering=oclustering +; +cp oclustering.qza $oclustering + ]]></command> + <inputs> + <param format="qza,no_unzip.zip" label="--i-table: ARTIFACT FeatureTable[Frequency] The feature table containing the samples in which the columns will be clustered. [required]" name="itable" optional="False" type="data"/> + <param label="--p-pseudocount: NUMBER The value to add to zero counts in the feature table. [default: 0.5]" name="ppseudocount" optional="True" type="float" value="0.5"/> + </inputs> + <outputs> + <data format="qza" label="${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>