annotate qiime2-2020.8/qiime_feature-table_relative-frequency.xml @ 0:5c352d975ef7 draft

Uploaded
author florianbegusch
date Thu, 03 Sep 2020 09:33:04 +0000
parents
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
0
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
1 <?xml version="1.0" ?>
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
2 <tool id="qiime_feature-table_relative-frequency" name="qiime feature-table relative-frequency"
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
3 version="2020.8">
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
4 <description>Convert to relative frequencies</description>
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
5 <requirements>
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
6 <requirement type="package" version="2020.8">qiime2</requirement>
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
7 </requirements>
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
8 <command><![CDATA[
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
9 qiime feature-table relative-frequency
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
10
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
11 --i-table=$itable
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
12
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
13 --o-relative-frequency-table=orelativefrequencytable
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
14
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
15 #if str($examples) != 'None':
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
16 --examples=$examples
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
17 #end if
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
18
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
19 ;
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
20 cp orelativefrequencytable.qza $orelativefrequencytable
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
21
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
22 ]]></command>
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
23 <inputs>
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
24 <param format="qza,no_unzip.zip" label="--i-table: ARTIFACT FeatureTable[Frequency] The feature table to be converted into relative frequencies. [required]" name="itable" optional="False" type="data" />
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
25 <param label="--examples: Show usage examples and exit." name="examples" optional="False" type="data" />
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
26
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
27 </inputs>
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
28
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
29 <outputs>
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
30 <data format="qza" label="${tool.name} on ${on_string}: relativefrequencytable.qza" name="orelativefrequencytable" />
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
31
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
32 </outputs>
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
33
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
34 <help><![CDATA[
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
35 Convert to relative frequencies
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
36 ###############################################################
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
37
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
38 Convert frequencies to relative frequencies by dividing each frequency in a
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
39 sample by the sum of frequencies in that sample.
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
40
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
41 Parameters
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
42 ----------
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
43 table : FeatureTable[Frequency]
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
44 The feature table to be converted into relative frequencies.
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
45
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
46 Returns
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
47 -------
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
48 relative_frequency_table : FeatureTable[RelativeFrequency]
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
49 The resulting relative frequency feature table.
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
50 ]]></help>
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
51 <macros>
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
52 <import>qiime_citation.xml</import>
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
53 </macros>
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
54 <expand macro="qiime_citation"/>
5c352d975ef7 Uploaded
florianbegusch
parents:
diff changeset
55 </tool>