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annotate Disruptin_hydrophobicity_helicity_table_package.xml @ 1:a99be535e99d draft

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author cpt
date Mon, 05 Jun 2023 02:41:05 +0000
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1 <tool id="edu.tamu.cpt2.phage.disruptin_table" name="Disruptin Table Output" version="1.0">
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2 <description>makes table of disruptin candidates</description>
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3 <macros>
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4 <import>macros.xml</import>
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5 <import>cpt-macros.xml</import>
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6 </macros>
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7 <expand macro="requirements"/>
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8 <command detect_errors="aggressive"><![CDATA[
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9 python '$__tool_directory__/Disruptin_hydrophobicity_helicity_table_package.py'
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10 '$garnier_file'
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11 '$fasta_file'
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15 >$output]]></command>
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16 <inputs>
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17 <param label="Garnier csv file" name="garnier_file" type="data" format="tabular"/>
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18 <param label="Candidate fasta file" name="fasta_file" type="data" format="fasta"/>
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19 </inputs>
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20 <outputs>
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21 <data format="tabular" name="output"/>
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22 </outputs>
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23 <help><![CDATA[
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24 **What it does**
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25 This program takes the parsed output from the garnier tool and the fasta file with disruptin candidate sequences
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26 and compiles information on each of the sequences into a table format. The table includes the sequence and the position for each residue
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27 as well as the charge, hydrophobicity (based on the Kyte Doolittle scale), and secondary structure prediction from
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28 the garnier tool.
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29
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30 ]]></help>
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31 <expand macro="citations"/>
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32 </tool>