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author q2d2
date Fri, 13 Jan 2023 22:51:31 +0000
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1 <?xml version='1.0' encoding='utf-8'?>
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2 <!--
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3 Copyright (c) 2023, QIIME 2 development team.
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5 Distributed under the terms of the Modified BSD License. (SPDX: BSD-3-Clause)
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7 <!--
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8 This tool was automatically generated by:
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9 q2galaxy (version: 2022.11.1)
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10 for:
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11 qiime2 (version: 2022.11.1)
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12 -->
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13 <tool name="qiime2 feature-classifier find-consensus-annotation" id="qiime2__feature_classifier__find_consensus_annotation" version="2022.11.1+q2galaxy.2022.11.1.2" profile="22.05" license="BSD-3-Clause">
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14 <description>Find consensus among multiple annotations.</description>
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15 <requirements>
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16 <container type="docker">quay.io/qiime2/core:2022.11</container>
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17 </requirements>
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18 <version_command>q2galaxy version feature_classifier</version_command>
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19 <command detect_errors="exit_code">q2galaxy run feature_classifier find_consensus_annotation '$inputs'</command>
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20 <configfiles>
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21 <inputs name="inputs" data_style="paths"/>
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22 </configfiles>
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23 <inputs>
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24 <param name="search_results" type="data" format="qza" label="search_results: FeatureData[BLAST6]" help="[required] Search results in BLAST6 output format">
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25 <options options_filter_attribute="metadata.semantic_type">
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26 <filter type="add_value" value="FeatureData[BLAST6]"/>
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27 </options>
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28 <validator type="expression" message="Incompatible type">hasattr(value.metadata, "semantic_type") and value.metadata.semantic_type in ['FeatureData[BLAST6]']</validator>
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29 </param>
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30 <param name="reference_taxonomy" type="data" format="qza" label="reference_taxonomy: FeatureData[Taxonomy]" help="[required] reference taxonomy labels.">
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31 <options options_filter_attribute="metadata.semantic_type">
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32 <filter type="add_value" value="FeatureData[Taxonomy]"/>
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33 </options>
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34 <validator type="expression" message="Incompatible type">hasattr(value.metadata, "semantic_type") and value.metadata.semantic_type in ['FeatureData[Taxonomy]']</validator>
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35 </param>
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36 <section name="__q2galaxy__GUI__section__extra_opts__" title="Click here for additional options">
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37 <param name="min_consensus" type="float" min="0.500001" max="1.0" value="0.51" label="min_consensus: Float % Range(0.5, 1.0, inclusive_start=False, inclusive_end=True)" help="[default: 0.51] Minimum fraction of assignments must match top hit to be accepted as consensus assignment."/>
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38 <param name="unassignable_label" type="text" value="Unassigned" label="unassignable_label: Str" help="[default: 'Unassigned'] Annotation given when no consensus is found.">
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39 <sanitizer>
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40 <valid initial="string.printable"/>
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41 </sanitizer>
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42 </param>
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43 </section>
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44 </inputs>
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45 <outputs>
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46 <data name="consensus_taxonomy" format="qza" label="${tool.name} on ${on_string}: consensus_taxonomy.qza" from_work_dir="consensus_taxonomy.qza"/>
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47 </outputs>
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48 <tests/>
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49 <help>
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50 QIIME 2: feature-classifier find-consensus-annotation
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51 =====================================================
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52 Find consensus among multiple annotations.
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53
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54
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55 Outputs:
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56 --------
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57 :consensus_taxonomy.qza: Consensus taxonomy and scores.
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58
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59 |
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60
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61 Description:
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62 ------------
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63 Find consensus annotation for each query searched against a reference database, by finding the least common ancestor among one or more semicolon-delimited hierarchical annotations. Note that the annotation hierarchy is assumed to have an even number of ranks.
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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">10.1186/s40168-018-0470-z</citation>
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71 <citation type="doi">10.1038/s41587-019-0209-9</citation>
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72 </citations>
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73 </tool>