Mercurial > repos > iuc > scater_plot_dist_scatter
comparison scater-plot-dist-scatter.xml @ 0:4887c4c69847 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/scater commit 5fdcafccb6c645d301db040dfeed693d7b6b4278
| author | iuc |
|---|---|
| date | Thu, 18 Jul 2019 11:12:33 -0400 |
| parents | |
| children | 2e41b35b5bdd |
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| -1:000000000000 | 0:4887c4c69847 |
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| 1 <tool id="scater_plot_dist_scatter" name="Scater: plot library QC" version="@TOOL_VERSION@"> | |
| 2 <description>Create plots to visualise library size, feature counts and mito gene expression</description> | |
| 3 <macros> | |
| 4 <import>macros.xml</import> | |
| 5 </macros> | |
| 6 <expand macro="requirements"> | |
| 7 <requirement type="package" version="0.2.1">r-ggpubr</requirement> | |
| 8 </expand> | |
| 9 <command detect_errors="exit_code"><![CDATA[ | |
| 10 Rscript '$__tool_directory__/scater-plot-dist-scatter.R' | |
| 11 -i '$input_loom' | |
| 12 -o '$output_plot' | |
| 13 ]]></command> | |
| 14 <inputs> | |
| 15 <param name="input_loom" type="data" format="loom" label="Input SingleCellLoomExperiment dataset" /> | |
| 16 </inputs> | |
| 17 <outputs> | |
| 18 <data name="output_plot" format="pdf" label="${tool.name} on ${on_string}" /> | |
| 19 </outputs> | |
| 20 <tests> | |
| 21 <test> | |
| 22 <param name="input_loom" value="scater_qcready.loom" ftype="loom" /> | |
| 23 <output name="output_plot" file="scater_reads_genes_dist.pdf" compare="sim_size" /> | |
| 24 </test> | |
| 25 </tests> | |
| 26 <help><![CDATA[ | |
| 27 Plot distribution of reads and features for single-cell RNA-seq analysis using Scater. | |
| 28 ]]></help> | |
| 29 <expand macro="citations" /> | |
| 30 </tool> |