Mercurial > repos > iuc > scater_plot_exprs_freq
diff scater-plot-exprs-freq.xml @ 0:a8290d207005 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/scater commit 5fdcafccb6c645d301db040dfeed693d7b6b4278
| author | iuc |
|---|---|
| date | Thu, 18 Jul 2019 11:14:38 -0400 |
| parents | |
| children | 058b40656107 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/scater-plot-exprs-freq.xml Thu Jul 18 11:14:38 2019 -0400 @@ -0,0 +1,30 @@ +<tool id="scater_plot_exprs_freq" name="Scater: plot expression frequency" version="@TOOL_VERSION@"> + <description>Plot the frequency of expression against the mean expression level for SCE</description> + <macros> + <import>macros.xml</import> + </macros> + <expand macro="requirements"> + <requirement type="package" version="0.2.1">r-ggpubr</requirement> + </expand> + <command detect_errors="exit_code"><![CDATA[ +Rscript '$__tool_directory__/scater-plot-exprs-freq.R' +-i '$input_loom' +-o '$output_plot' + ]]></command> + <inputs> + <param name="input_loom" type="data" format="loom" label="Input SingleCellLoomExperiment dataset" /> + </inputs> + <outputs> + <data name="output_plot" format="pdf" label="${tool.name} on ${on_string}" /> + </outputs> + <tests> + <test> + <param name="input_loom" value="scater_qcready.loom" ftype="loom" /> + <output name="output_plot" file="scater_exprs_freq.pdf" compare="sim_size" /> + </test> + </tests> + <help><![CDATA[ +Plot the frequency of expression (i.e., percentage of expressing cells) against the mean expression level for each feature in a SingleCellExperiment object. + ]]></help> + <expand macro="citations" /> +</tool>