Mercurial > repos > florianbegusch > qiime2_suite
diff qiime2/qiime_composition_add-pseudocount.xml @ 0:370e0b6e9826 draft
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author | florianbegusch |
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date | Wed, 17 Jul 2019 03:05:17 -0400 |
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children | a025a4a89e07 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime2/qiime_composition_add-pseudocount.xml Wed Jul 17 03:05:17 2019 -0400 @@ -0,0 +1,48 @@ +<?xml version="1.0" ?> +<tool id="qiime_composition_add-pseudocount" name="qiime composition add-pseudocount" version="2019.4"> + <description> - Add pseudocount to table</description> + <requirements> + <requirement type="package" version="2019.4">qiime2</requirement> + </requirements> + <command><![CDATA[ +qiime composition add-pseudocount + +--i-table=$itable +--o-composition-table=ocompositiontable + +#if $ppseudocount: + --p-pseudocount=$ppseudocount +#end if +; +cp ocompositiontable.qza $ocompositiontable + ]]></command> + <inputs> + <param format="qza,no_unzip.zip" label="--i-table: ARTIFACT FeatureTable[Frequency] The feature table to which pseudocounts should be added. [required]" name="itable" optional="False" type="data"/> + <param label="--p-pseudocount: INTEGER The value to add to all counts in the feature table. [default: 1]" name="ppseudocount" optional="True" type="integer" value="1"/> + </inputs> + <outputs> + <data format="qza" label="${tool.name} on ${on_string}: compositiontable.qza" name="ocompositiontable"/> + </outputs> + <help><![CDATA[ +Add pseudocount to table +######################## + +Increment all counts in table by pseudocount. + +Parameters +---------- +table : FeatureTable[Frequency] + The feature table to which pseudocounts should be added. +pseudocount : Int, optional + The value to add to all counts in the feature table. + +Returns +------- +composition_table : FeatureTable[Composition] + The resulting feature table. + ]]></help> +<macros> + <import>qiime_citation.xml</import> +</macros> +<expand macro="qiime_citation"/> +</tool>