Mercurial > repos > q2d2 > qiime2__metadata__distance_matrix
annotate qiime2__metadata__distance_matrix.xml @ 2:8a43985a8f35 draft
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__metadata commit 65e4952f33eb335528e8553150e9097e5ea8f556
author | q2d2 |
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date | Thu, 08 Jun 2023 19:49:40 +0000 |
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c6f80266af38
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__metadata commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
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1 <?xml version='1.0' encoding='utf-8'?> |
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planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__metadata commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
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2 <!-- |
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3 Copyright (c) 2023, QIIME 2 development team. |
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4 |
c6f80266af38
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__metadata commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
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5 Distributed under the terms of the Modified BSD License. (SPDX: BSD-3-Clause) |
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planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__metadata commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
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6 --> |
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planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__metadata commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
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7 <!-- |
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planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__metadata commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
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8 This tool was automatically generated by: |
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planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__metadata commit 65e4952f33eb335528e8553150e9097e5ea8f556
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9 q2galaxy (version: 2023.5.0) |
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10 for: |
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8a43985a8f35
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__metadata commit 65e4952f33eb335528e8553150e9097e5ea8f556
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11 qiime2 (version: 2023.5.1) |
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12 --> |
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8a43985a8f35
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__metadata commit 65e4952f33eb335528e8553150e9097e5ea8f556
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13 <tool name="qiime2 metadata distance-matrix" id="qiime2__metadata__distance_matrix" version="2023.5.0+q2galaxy.2023.5.0.2" profile="22.05" license="BSD-3-Clause"> |
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planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__metadata commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
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14 <description>Create a distance matrix from a numeric Metadata column</description> |
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planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__metadata commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
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15 <requirements> |
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planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__metadata commit 65e4952f33eb335528e8553150e9097e5ea8f556
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16 <container type="docker">quay.io/qiime2/core:2023.5</container> |
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planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__metadata commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
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17 </requirements> |
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planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__metadata commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
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18 <version_command>q2galaxy version metadata</version_command> |
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19 <command detect_errors="exit_code">q2galaxy run metadata distance_matrix '$inputs'</command> |
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20 <configfiles> |
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21 <inputs name="inputs" data_style="paths"/> |
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planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__metadata commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
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22 </configfiles> |
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planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__metadata commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
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23 <inputs> |
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24 <conditional name="metadata"> |
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planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__metadata commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
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25 <param name="type" type="select" label="metadata: MetadataColumn[Numeric]" help="[required] Numeric metadata column to compute pairwise Euclidean distances from"> |
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planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__metadata commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
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26 <option value="tsv" selected="true">Metadata from TSV</option> |
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planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__metadata commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
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27 <option value="qza">Metadata from Artifact</option> |
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planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__metadata commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
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28 </param> |
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planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__metadata commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
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29 <when value="tsv"> |
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planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__metadata commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
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30 <param name="source" type="data" format="tabular,qiime2.tabular" label="Metadata Source"/> |
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31 <param name="column" type="data_column" label="Column Name" data_ref="source" use_header_names="true"> |
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planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__metadata commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
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32 <validator type="expression" message="The first column cannot be selected (they are IDs).">value != "1"</validator> |
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33 </param> |
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34 </when> |
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35 <when value="qza"> |
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36 <param name="source" type="data" format="qza" label="Metadata Source"/> |
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37 <param name="column" type="text" label="Column Name"> |
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38 <validator type="empty_field"/> |
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39 </param> |
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40 </when> |
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41 </conditional> |
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42 </inputs> |
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43 <outputs> |
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44 <data name="distance_matrix" format="qza" label="${tool.name} on ${on_string}: distance_matrix.qza" from_work_dir="distance_matrix.qza"/> |
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45 </outputs> |
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46 <tests/> |
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47 <help> |
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48 QIIME 2: metadata distance-matrix |
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49 ================================= |
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50 Create a distance matrix from a numeric Metadata column |
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51 |
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52 |
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53 Outputs: |
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54 -------- |
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55 :distance_matrix.qza: <no description> |
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56 |
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57 | |
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58 |
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59 Description: |
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60 ------------ |
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61 Create a distance matrix from a numeric metadata column. The Euclidean distance is computed between each pair of samples or features in the column. |
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62 |
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63 Tip: the distance matrix produced by this method can be used as input to the Mantel test available in `q2-diversity`. |
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64 |
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65 |
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66 | |
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67 |
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68 </help> |
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69 <citations> |
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70 <citation type="doi">10.1038/s41587-019-0209-9</citation> |
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71 </citations> |
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72 </tool> |