comparison phyloseq_plot_richness.xml @ 0:92b82deaaed1 draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/phyloseq commit d1004c06207be773c278e12745aada276b63172e"
author iuc
date Thu, 03 Mar 2022 13:28:55 +0000
parents
children 1ff178d1757e
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-1:000000000000 0:92b82deaaed1
1 <tool id="phyloseq_plot_richness" name="Phyloseq: plot alpha diverstiy measure" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@">
2 <description></description>
3 <macros>
4 <import>macros.xml</import>
5 </macros>
6 <expand macro="requirements"/>
7 <command detect_errors="exit_code"><![CDATA[
8 Rscript '${__tool_directory__}/phyloseq_plot_richness.R'
9 --input '$input'
10 --output '$output'
11 ]]></command>
12 <inputs>
13 <expand macro="phyloseq_input"/>
14 </inputs>
15 <outputs>
16 <data name="output" format="pdf"/>
17 </outputs>
18 <tests>
19 <test>
20 <param name="input" value="output.phyloseq" ftype="phyloseq"/>
21 <output name="output" ftype="pdf">
22 <assert_contents>
23 <has_text text="%PDF"/>
24 <has_text text="%%EOF"/>
25 </assert_contents>
26 </output>
27 </test>
28 </tests>
29 <help>
30 **What it does**
31
32 Accepts a dataset containing a phyloseq object created from a dada2 taxonomy table and a dada2 sequence table,
33 estimates a number of alpha-diversity metrics, and generates a colored plot that includes the alpha diverstiy measure
34 of each sample.
35 </help>
36 <expand macro="citations"/>
37 </tool>
38