Mercurial > repos > florianbegusch > qiime2_wrappers
diff qiime2/qiime_feature-table_presence-absence.xml @ 0:51b9b6b57732 draft
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author | florianbegusch |
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date | Thu, 24 May 2018 05:21:07 -0400 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime2/qiime_feature-table_presence-absence.xml Thu May 24 05:21:07 2018 -0400 @@ -0,0 +1,49 @@ +<?xml version="1.0" ?> +<tool id="qiime_feature-table_presence-absence" name="qiime feature-table presence-absence" version="2018.4"> + <description> - Convert to presence/absence</description> + <requirements> + <requirement type="package" version="2018.4">qiime2</requirement> + </requirements> + <command> + <![CDATA[ + qiime feature-table presence-absence --i-table=$itable + + #if str($cmdconfig) != 'None': + --cmd-config=$cmdconfig + #end if + --o-presence-absence-table=opresenceabsencetable; + + cp opresenceabsencetable.qza $opresenceabsencetable; + ]]> + </command> + <inputs> + <param format="qza,no_unzip.zip" label="--i-table: FeatureTable[Frequency | RelativeFrequency] The feature table to be converted into presence/absence abundances. [required]" name="itable" optional="False" type="data"/> + <param label="--cmd-config: Use config file for command options" name="cmdconfig" optional="True" type="data"/> + </inputs> + <outputs> + <data format="qza" label="${tool.name} on ${on_string}: presence-absence-table.qza" name="opresenceabsencetable"/> + </outputs> + <help> + <![CDATA[ +Convert to presence/absence +---------------------------- + +Convert frequencies to binary values indicating presence or absence of a +feature in a sample. + +Parameters +---------- +table : FeatureTable[Frequency | RelativeFrequency] + The feature table to be converted into presence/absence abundances. + +Returns +------- +presence_absence_table : FeatureTable[PresenceAbsence] + The resulting presence/absence feature table. + ]]> + </help> +<macros> + <import>qiime_citation.xml</import> +</macros> +<expand macro="qiime_citation" /> +</tool>