Mercurial > repos > cpt > cpt_disruptin_table
comparison cpt_disruptin_table/Disruptin_hydrophobicity_helicity_table_package.xml @ 0:f3fc78cc4c43 draft
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| author | cpt |
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| date | Fri, 17 Jun 2022 12:33:22 +0000 |
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| -1:000000000000 | 0:f3fc78cc4c43 |
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| 1 <?xml version="1.0"?> | |
| 2 <tool id="edu.tamu.cpt2.phage.disruptin_table" name="Disruptin Table Output" version="1.0"> | |
| 3 <description>makes table of disruptin candidates</description> | |
| 4 <macros> | |
| 5 <import>macros.xml</import> | |
| 6 <import>cpt-macros.xml</import> | |
| 7 </macros> | |
| 8 <expand macro="requirements"/> | |
| 9 <command detect_errors="aggressive"><![CDATA[ | |
| 10 python $__tool_directory__/Disruptin_hydrophobicity_helicity_table_package.py | |
| 11 $garnier_file | |
| 12 $fasta_file | |
| 13 | |
| 14 | |
| 15 | |
| 16 >$output]]></command> | |
| 17 <inputs> | |
| 18 <param label="Garnier csv file" name="garnier_file" type="data" format="tabular" /> | |
| 19 <param label="Candidate fasta file" name="fasta_file" type="data" format="fasta" /> | |
| 20 </inputs> | |
| 21 <outputs> | |
| 22 <data format="tabular" name="output"/> | |
| 23 </outputs> | |
| 24 <help><![CDATA[ | |
| 25 **What it does** | |
| 26 This program takes the parsed output from the garnier tool and the fasta file with disruptin candidate sequences | |
| 27 and compiles information on each of the sequences into a table format. The table includes the sequence and the position for each residue | |
| 28 as well as the charge, hydrophobicity (based on the Kyte Doolittle scale), and secondary structure prediction from | |
| 29 the garnier tool. | |
| 30 | |
| 31 ]]></help> | |
| 32 <expand macro="citations" /> | |
| 33 </tool> |