diff qiime2-2020.8/qiime_composition_add-pseudocount.xml @ 0:5c352d975ef7 draft

Uploaded
author florianbegusch
date Thu, 03 Sep 2020 09:33:04 +0000
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+++ b/qiime2-2020.8/qiime_composition_add-pseudocount.xml	Thu Sep 03 09:33:04 2020 +0000
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+<?xml version="1.0" ?>
+<tool id="qiime_composition_add-pseudocount" name="qiime composition add-pseudocount"
+      version="2020.8">
+  <description>Add pseudocount to table</description>
+  <requirements>
+    <requirement type="package" version="2020.8">qiime2</requirement>
+  </requirements>
+  <command><![CDATA[
+qiime composition add-pseudocount
+
+--i-table=$itable
+
+--p-pseudocount=$ppseudocount
+
+--o-composition-table=ocompositiontable
+
+#if str($examples) != 'None':
+--examples=$examples
+#end if
+
+;
+cp ocompositiontable.qza $ocompositiontable
+
+  ]]></command>
+  <inputs>
+    <param format="qza,no_unzip.zip" label="--i-table: ARTIFACT FeatureTable[Frequency] The feature table to which pseudocounts should be added.                                       [required]" name="itable" optional="False" type="data" />
+    <param label="--p-pseudocount: INTEGER The value to add to all counts in the feature table. [default: 1]" name="ppseudocount" optional="True" type="integer" value="1" />
+    <param label="--examples: Show usage examples and exit." name="examples" optional="False" type="data" />
+    
+  </inputs>
+
+  <outputs>
+    <data format="qza" label="${tool.name} on ${on_string}: 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>
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