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comparison qiime2/qiime_feature-table_presence-absence.xml @ 0:51b9b6b57732 draft

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author florianbegusch
date Thu, 24 May 2018 05:21:07 -0400
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1 <?xml version="1.0" ?>
2 <tool id="qiime_feature-table_presence-absence" name="qiime feature-table presence-absence" version="2018.4">
3 <description> - Convert to presence/absence</description>
4 <requirements>
5 <requirement type="package" version="2018.4">qiime2</requirement>
6 </requirements>
7 <command>
8 <![CDATA[
9 qiime feature-table presence-absence --i-table=$itable
10
11 #if str($cmdconfig) != 'None':
12 --cmd-config=$cmdconfig
13 #end if
14 --o-presence-absence-table=opresenceabsencetable;
15
16 cp opresenceabsencetable.qza $opresenceabsencetable;
17 ]]>
18 </command>
19 <inputs>
20 <param format="qza,no_unzip.zip" label="--i-table: FeatureTable[Frequency | RelativeFrequency] The feature table to be converted into presence/absence abundances. [required]" name="itable" optional="False" type="data"/>
21 <param label="--cmd-config: Use config file for command options" name="cmdconfig" optional="True" type="data"/>
22 </inputs>
23 <outputs>
24 <data format="qza" label="${tool.name} on ${on_string}: presence-absence-table.qza" name="opresenceabsencetable"/>
25 </outputs>
26 <help>
27 <![CDATA[
28 Convert to presence/absence
29 ----------------------------
30
31 Convert frequencies to binary values indicating presence or absence of a
32 feature in a sample.
33
34 Parameters
35 ----------
36 table : FeatureTable[Frequency | RelativeFrequency]
37 The feature table to be converted into presence/absence abundances.
38
39 Returns
40 -------
41 presence_absence_table : FeatureTable[PresenceAbsence]
42 The resulting presence/absence feature table.
43 ]]>
44 </help>
45 <macros>
46 <import>qiime_citation.xml</import>
47 </macros>
48 <expand macro="qiime_citation" />
49 </tool>