Mercurial > repos > matteoc > agame_custom_tools
annotate de_prokka/de_prokka.xml @ 0:68a3648c7d91 draft default tip
Uploaded
| author | matteoc |
|---|---|
| date | Thu, 22 Dec 2016 04:45:31 -0500 |
| parents | |
| children |
| rev | line source |
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| 0 | 1 <tool id="de_prokka" name="Prokka parser" version="0."> |
| 2 <description>Parsing of Prokka output</description> | |
| 3 <command> /home/inmare/galaxy/tools/de_prokka/de_prokka.pl $prot $pfam $out</command> | |
| 4 <inputs> | |
| 5 <param name="prot" type="data" format="fasta" label="protein file by prokka" help="fasta only"/> | |
| 6 <param name="pfam" type="data" format="tabular" label="gff by prokka" help="this file should match the protein file"/> | |
| 7 </inputs> | |
| 8 <outputs> | |
| 9 <data name="out" ftype="data" format="fasta" label="annotated prokka file"/> | |
| 10 </outputs> | |
| 11 <test/> | |
| 12 <help> | |
| 13 This tool add information, derived from the gff file to the headers of a fasta files containing the sequences of proteins predicted by prokka. The operation is required in order to keep track of all the information related to the proteins and the scaffolds/contigs from which they are predicted, so that they are not lost in the functional annotation step. This tool is a simple parser based on regular expressions. Works only with Prokka version xxx. Any usage outside A-Game is discouraged | |
| 14 </help> | |
| 15 </tool> |