Mercurial > repos > iuc > scater_normalize
comparison scater-normalize.xml @ 0:87757f7b9974 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/scater commit 5fdcafccb6c645d301db040dfeed693d7b6b4278
author | iuc |
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date | Thu, 18 Jul 2019 11:13:05 -0400 |
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-1:000000000000 | 0:87757f7b9974 |
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1 <tool id="scater_normalize" name="Scater: normalize SCE" version="@TOOL_VERSION@"> | |
2 <description>Compute normalised expression values for SCE</description> | |
3 <macros> | |
4 <import>macros.xml</import> | |
5 </macros> | |
6 <expand macro="requirements" /> | |
7 <command detect_errors="exit_code"><![CDATA[ | |
8 Rscript '$__tool_directory__/scater-normalize.R' | |
9 -i '$input_loom' | |
10 -o '$output_loom' | |
11 ]]></command> | |
12 <inputs> | |
13 <param name="input_loom" type="data" format="loom" label="Input SingleCellLoomExperiment dataset to normalize" /> | |
14 </inputs> | |
15 <outputs> | |
16 <data name="output_loom" format="loom" label="${tool.name} on ${on_string}" /> | |
17 </outputs> | |
18 <tests> | |
19 <test> | |
20 <param name="input_loom" value="scater_manual_filtered.loom" ftype="loom" /> | |
21 <output name="output_loom" file="scater_filtered_normalised.loom" compare="sim_size" /> | |
22 </test> | |
23 </tests> | |
24 <help><![CDATA[ | |
25 Normalize a SingleCellLoomExperiment object using Scater. Adds 'logcounts' to assays slot. | |
26 ]]></help> | |
27 <expand macro="citations" /> | |
28 </tool> |