Mercurial > repos > ebi-gxa > dropletutils_empty_drops

comparison dropletutils-empty-drops.xml @ 4:fa662ca7ae7f draft default tip

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"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit a1ad1ddd9b8e4db5bb82c3accae8311e0e488b19"
author ebi-gxa
date Fri, 27 Nov 2020 13:39:42 +0000
parents da189ce4016b
children
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3:8dd732e13393 4:fa662ca7ae7f
1 <?xml version="1.0" encoding="utf-8"?> 1 <?xml version="1.0" encoding="utf-8"?>
2 <tool id="dropletutils_empty_drops" name="DropletUtils emptyDrops" version="@TOOL_VERSION@+galaxy1"> 2 <tool id="dropletutils_empty_drops" name="DropletUtils emptyDrops" version="@TOOL_VERSION@+galaxy0">
3 <description>Distinguish between droplets containing cells and ambient RNA in a droplet-based single-cell RNA sequencing experiment.</description> 3 <description>Distinguish between droplets containing cells and ambient RNA in a droplet-based single-cell RNA sequencing experiment.</description>
4 <macros> 4 <macros>
5 <import>dropletutils_macros.xml</import> 5 <import>dropletutils_macros.xml</import>
6 </macros> 6 </macros>
7 <expand macro="requirements"/> 7 <expand macro="requirements"/>
28 28
29 <outputs> 29 <outputs>
30 <data name="output_rdata" format="rdata" label="${tool.name} on ${on_string}: serialized SingleCellExperiment object"/> 30 <data name="output_rdata" format="rdata" label="${tool.name} on ${on_string}: serialized SingleCellExperiment object"/>
31 <data name="output_txt" format="txt" label="${tool.name} on ${on_string}: tabular output"/> 31 <data name="output_txt" format="txt" label="${tool.name} on ${on_string}: tabular output"/>
32 </outputs> 32 </outputs>
33 <tests>
34 <test>
35 <param name="input" value="raw_sce.rds" />
36 <param name="lower" value="1000" />
37 <param name="niters" value="10000" />
38 <param name="testambient" value="False" />
39 <param name="ignore" value="500" />
40 <param name="retain" value="200" />
41 <param name="filter_empty" value="True" />
42 <output name="output_rdata" file="empty_filt_sce.rds" compare="sim_size" delta="1000000" />
43 <output name="output_txt" file="empty_filt.txt" compare="sim_size" delta="1000000" />
44 </test>
45 </tests>
33 46
34 <help><![CDATA[ 47 <help><![CDATA[
35 ======================================================================================================================================== 48 ========================================================================================================================================
36 Distinguish between droplets containing cells and ambient RNA in a droplet-based single-cell RNA sequencing experiment. (`emptyDrops()`) 49 Distinguish between droplets containing cells and ambient RNA in a droplet-based single-cell RNA sequencing experiment. (`emptyDrops()`)
37 ======================================================================================================================================== 50 ========================================================================================================================================