Mercurial > repos > ebi-gxa > droplet_barcode_plot

comparison dropletBarcodePlot.xml @ 2:7782648d8b56 draft

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"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/droplet-rank-plot/.shed.yml commit 6f31a23343fd7d0a834eebe268d820733eb483b5"
author ebi-gxa
date Tue, 24 Mar 2020 07:14:22 -0400
parents 0e985680e67d
children 8f605643ccfd
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1:0e985680e67d 2:7782648d8b56
1 <tool id="_dropletBarcodePlot" name="Droplet barcode rank plot" version="1.6.1+galaxy1" profile="18.01"> 1 <tool id="_dropletBarcodePlot" name="Droplet barcode rank plot" version="1.6.1+galaxy2" profile="18.01">
2 <description>Creates a barcode rank plot for quality control of droplet single-cell RNA-seq data</description> 2 <description>Creates a barcode rank plot for quality control of droplet single-cell RNA-seq data</description>
3 <requirements> 3 <requirements>
4 <requirement type="package" version="1.6.1">bioconductor-dropletutils</requirement> 4 <requirement type="package" version="0.0.1">scxa-plots</requirement>
5 <requirement type="package" version="0.3.9">openblas</requirement>
6 <requirement type="package" version="1.2">r-matrix</requirement>
7 <requirement type="package" version="3.2.1">r-ggplot2</requirement>
8 <requirement type="package" version="1.6.4">r-optparse</requirement>
9 <requirement type="package" version="2.3">r-gridextra</requirement>
10 <requirement type="package" version="0.12.0">bioconductor-delayedarray</requirement>
11 </requirements> 5 </requirements>
12 <command detect_errors="exit_code"><![CDATA[ 6 <command detect_errors="exit_code"><![CDATA[
13 $__tool_directory__/dropletBarcodePlot.R --output-plot "${plot_file}" --output-thresholds "${thresholds_file}" --label "${label}" --density-bins "${density_bins}" --roryk-multiplier "${roryk_multiplier}" 7 $__tool_directory__/dropletBarcodePlot.R --output-plot "${plot_file}" --output-thresholds "${thresholds_file}" --label "${label}" --density-bins "${density_bins}" --roryk-multiplier "${roryk_multiplier}"
14 #if $input.type == 'mtx_matrix' 8 #if $input.type == 'mtx_matrix'
15 --mtx-matrix ${input.mtx_matrix} 9 --mtx-matrix ${input.mtx_matrix}