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planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
author q2d2
date Mon, 29 Aug 2022 19:30:01 +0000
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1 <?xml version='1.0' encoding='utf-8'?>
2 <!--
3 Copyright (c) 2022, QIIME 2 development team.
4
5 Distributed under the terms of the Modified BSD License. (SPDX: BSD-3-Clause)
6 -->
7 <!--
8 This tool was automatically generated by:
9 q2galaxy (version: 2022.8.1)
10 for:
11 qiime2 (version: 2022.8.1)
12 -->
13 <tool name="qiime2 diversity bioenv" id="qiime2__diversity__bioenv" version="2022.8.0+q2galaxy.2022.8.1.2" profile="22.05" license="BSD-3-Clause">
14 <description>bioenv</description>
15 <requirements>
16 <container type="docker">quay.io/qiime2/core:2022.8</container>
17 </requirements>
18 <version_command>q2galaxy version diversity</version_command>
19 <command detect_errors="aggressive">q2galaxy run diversity bioenv '$inputs'</command>
20 <configfiles>
21 <inputs name="inputs" data_style="paths"/>
22 </configfiles>
23 <inputs>
24 <param name="distance_matrix" type="data" format="qza" label="distance_matrix: DistanceMatrix" help="[required] Matrix of distances between pairs of samples.">
25 <options options_filter_attribute="metadata.semantic_type">
26 <filter type="add_value" value="DistanceMatrix"/>
27 </options>
28 <validator type="expression" message="Incompatible type">hasattr(value.metadata, "semantic_type") and value.metadata.semantic_type in ['DistanceMatrix']</validator>
29 </param>
30 <repeat name="metadata" min="1" help="[required] The sample metadata." title="metadata: Metadata">
31 <conditional name="__q2galaxy__GUI__conditional__metadata__">
32 <param name="type" type="select" label="metadata: Metadata">
33 <option value="tsv" selected="true">Metadata from TSV</option>
34 <option value="qza">Metadata from Artifact</option>
35 </param>
36 <when value="tsv">
37 <param name="source" type="data" format="tabular,qiime2.tabular" label="Metadata Source"/>
38 </when>
39 <when value="qza">
40 <param name="source" type="data" format="qza" label="Metadata Source"/>
41 </when>
42 </conditional>
43 </repeat>
44 </inputs>
45 <outputs>
46 <data name="visualization" format="qzv" label="${tool.name} on ${on_string}: visualization.qzv" from_work_dir="visualization.qzv"/>
47 </outputs>
48 <tests/>
49 <help>
50 QIIME 2: diversity bioenv
51 =========================
52 bioenv
53
54
55 Outputs:
56 --------
57 :visualization.qzv: &lt;no description&gt;
58
59 |
60
61 Description:
62 ------------
63 Find the subsets of variables in metadata whose Euclidean distances are maximally rank-correlated with distance matrix. All numeric variables in metadata will be considered, and samples which are missing data will be dropped. The output visualization will indicate how many samples were dropped due to missing data, if any were dropped.
64
65
66 |
67
68 </help>
69 <citations>
70 <citation type="doi">https://doi.org/10.3354/meps092205</citation>
71 <citation type="doi">10.1038/s41587-019-0209-9</citation>
72 </citations>
73 </tool>