Mercurial > repos > q2d2 > qiime2__dada2__plot_base_transitions
changeset 0:757ff40d49bf draft default tip
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__dada2 commit 64ed09f1f1c680ad8373d261bd6be43a4f8a8d5b
| author | q2d2 |
|---|---|
| date | Sat, 01 Nov 2025 17:10:41 +0000 |
| parents | |
| children | |
| files | qiime2__dada2__plot_base_transitions.xml test-data/denoise_paired.test0.demux-paired.qza test-data/denoise_single.test0.demux-single.qza |
| diffstat | 3 files changed, 67 insertions(+), 0 deletions(-) [+] |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime2__dada2__plot_base_transitions.xml Sat Nov 01 17:10:41 2025 +0000 @@ -0,0 +1,67 @@ +<?xml version='1.0' encoding='utf-8'?> +<!-- +Copyright (c) 2025, 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: 2025.10.0) +for: + qiime2 (version: 2025.10.0) +--> +<tool name="qiime2 dada2 plot-base-transitions" id="qiime2__dada2__plot_base_transitions" version="2025.10.0+q2galaxy.2025.10.0" profile="22.05" license="BSD-3-Clause"> + <description>DADA2 diagnostic statistics</description> + <xrefs> + <xref type="bio.tools">qiime2</xref> + </xrefs> + <requirements> + <container type="docker">quay.io/qiime2/amplicon:2025.10</container> + </requirements> + <version_command>q2galaxy version dada2</version_command> + <command detect_errors="exit_code">q2galaxy run dada2 plot_base_transitions '$inputs'</command> + <configfiles> + <inputs name="inputs" data_style="staging_path_and_source_path"/> + </configfiles> + <inputs> + <param name="base_transition_stats" type="data" format="qza" label="base_transition_stats: DADA2BaseTransitionStats" help="[required] Dada2 Base transition statistics."> + <options options_filter_attribute="metadata.semantic_type"> + <filter type="add_value" value="DADA2BaseTransitionStats"/> + </options> + <validator type="expression" message="Incompatible type">hasattr(value.metadata, "semantic_type") and value.metadata.semantic_type in ['DADA2BaseTransitionStats']</validator> + </param> + <section name="__q2galaxy__GUI__section__extra_opts__" title="Click here for additional options"> + <param name="nominalq" type="boolean" truevalue="__q2galaxy__::literal::True" falsevalue="__q2galaxy__::literal::False" label="nominalq: Bool" help="[default: No] Sets the nominalq line of the vizualization"/> + <param name="error_in" type="boolean" truevalue="__q2galaxy__::literal::True" falsevalue="__q2galaxy__::literal::False" label="error_in: Bool" help="[default: No] Sets the input error line of the vizualization"/> + <param name="error_out" type="boolean" truevalue="__q2galaxy__::literal::True" falsevalue="__q2galaxy__::literal::False" checked="true" label="error_out: Bool" help="[default: Yes] Sets the output error line of the vizualization"/> + </section> + </inputs> + <outputs> + <data name="visualization" format="qzv" label="${tool.name} on ${on_string}: visualization.qzv" from_work_dir="visualization.qzv"/> + </outputs> + <tests/> + <help> +QIIME 2: dada2 plot-base-transitions +==================================== +DADA2 diagnostic statistics + + +Outputs: +-------- +:visualization.qzv: <no description> + +| + +Description: +------------ +Generates dada2 output stat vizualizations + + +| + +</help> + <citations> + <citation type="doi">10.1038/nmeth.3869</citation> + <citation type="doi">10.1038/s41587-019-0209-9</citation> + </citations> +</tool>