Mercurial > repos > jay > pdaug_peptide_length_distribution

annotate PDAUG_Peptide_Length_Distribution/PDAUG_Peptide_Length_Distribution.xml @ 4:e62e03a4d81e draft

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"planemo upload for repository https://github.com/jaidevjoshi83/pdaug commit 45ebf32dcaa1eed91670d3a2491f9cf3dfb535ef"
author jay
date Tue, 12 Jan 2021 19:02:11 +0000
parents 3f9bdcf83244
children
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1 <tool id="pdaug_peptide_length_distribution" name="PDAUG Peptide Length Distribution" version="0.1.0" python_template_version="3.6">
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2 <description>Analyze peptides length distribution of a dataset</description>
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4 <requirements>
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5 <requirement type="package" version="3.2.2">matplotlib</requirement>
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6 <requirement type="package" version="1.76" >biopython</requirement>
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8 </requirements>
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10 <command detect_errors="exit_code"><![CDATA[
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12 python '$__tool_directory__/PDAUG_Peptide_Length_Distribution.py' --InFile '$input1' --OutFile 'out.png'
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13 ]]></command>
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15 <inputs>
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16 <param name="input1" type="data" format="fasta" label="Input file" argument= "--InFile" help="fasta file with peptides"/>
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17 </inputs>
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19 <outputs>
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20 <data name='output2' format='png' label="${tool.name} on $on_string - (PNG)" from_work_dir="out.png"/>
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21 </outputs>
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23 <tests>
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24 <test>
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25 <param name="input1" value="positive.fasta"/>
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26 <output name="output2" file="out.png"/>
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27 </test>
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28 </tests>
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30 <help><![CDATA[
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31 .. class:: infomark
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33 **What it does**
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35 This tool calculates and plots the length distribution of peptide sequences in a peptide dataset.
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37 -----
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39 **Inputs**
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40 * **--InFile** fasta file with peptide sequences.
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42 -----
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44 **Outputs**
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45 * Return html report file.]]></help>
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46 <citations>
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47 <citation type="bibtex">
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49 @misc{PDAUGGITHUB,
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50 author = {Joshi, Jayadev and Blankenberg, Daniel},
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51 year = {2020},
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52 title ={PDAUG - a Galaxy based toolset for peptide library analysis, visualization, and machine learning modeling},
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53 publisher = {GitHub},
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54 journal = {GitHub repository},
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55 url =
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56 {https://github.com/jaidevjoshi83/pdaug.git},
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58 }</citation>
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59 </citations>
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60 </tool>
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