Mercurial > repos > q2d2 > qiime2__composition__add_pseudocount
changeset 0:1ba5ca5ccc3e draft
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__composition commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
author | q2d2 |
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date | Mon, 29 Aug 2022 19:20:37 +0000 |
parents | |
children | c6780899249e |
files | qiime2__composition__add_pseudocount.xml test-data/.gitkeep |
diffstat | 1 files changed, 62 insertions(+), 0 deletions(-) [+] |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime2__composition__add_pseudocount.xml Mon Aug 29 19:20:37 2022 +0000 @@ -0,0 +1,62 @@ +<?xml version='1.0' encoding='utf-8'?> +<!-- +Copyright (c) 2022, QIIME 2 development team. + +Distributed under the terms of the Modified BSD License. (SPDX: BSD-3-Clause) +--> +<!-- +This tool was automatically generated by: + q2galaxy (version: 2022.8.1) +for: + qiime2 (version: 2022.8.1) +--> +<tool name="qiime2 composition add-pseudocount" id="qiime2__composition__add_pseudocount" version="2022.8.0+q2galaxy.2022.8.1.2" profile="22.05" license="BSD-3-Clause"> + <description>Add pseudocount to table</description> + <requirements> + <container type="docker">quay.io/qiime2/core:2022.8</container> + </requirements> + <version_command>q2galaxy version composition</version_command> + <command detect_errors="aggressive">q2galaxy run composition add_pseudocount '$inputs'</command> + <configfiles> + <inputs name="inputs" data_style="paths"/> + </configfiles> + <inputs> + <param name="table" type="data" format="qza" label="table: FeatureTable[Frequency]" help="[required] The feature table to which pseudocounts should be added."> + <options options_filter_attribute="metadata.semantic_type"> + <filter type="add_value" value="FeatureTable[Frequency]"/> + </options> + <validator type="expression" message="Incompatible type">hasattr(value.metadata, "semantic_type") and value.metadata.semantic_type in ['FeatureTable[Frequency]']</validator> + </param> + <section name="__q2galaxy__GUI__section__extra_opts__" title="Click here for additional options"> + <param name="pseudocount" type="integer" value="1" label="pseudocount: Int" help="[default: 1] The value to add to all counts in the feature table."/> + </section> + </inputs> + <outputs> + <data name="composition_table" format="qza" label="${tool.name} on ${on_string}: composition_table.qza" from_work_dir="composition_table.qza"/> + </outputs> + <tests/> + <help> +QIIME 2: composition add-pseudocount +==================================== +Add pseudocount to table + + +Outputs: +-------- +:composition_table.qza: The resulting feature table. + +| + +Description: +------------ +Increment all counts in table by pseudocount. + + +| + +</help> + <citations> + <citation type="doi">10.3402/mehd.v26.27663</citation> + <citation type="doi">10.1038/s41587-019-0209-9</citation> + </citations> +</tool>