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Uploaded
author bgruening
date Sat, 12 Apr 2014 07:25:47 -0400
parents f258fbfead4b
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<tool id="compomics_reverse" name="Create Target-Decoy Database" version="0.1.0">
    <description>Creates a target-decoy database for use with Peptide Shaker</description>
    <requirements>
        <requirement type="set_environment">PEPTIDESHAKER_SCRIPT_PATH</requirement>
    </requirements>
    <command interpreter="python">
        reverse.py 
            --input='$input'
            --output='$output'
            --script_path \$PEPTIDESHAKER_SCRIPT_PATH
    </command>
    <inputs>
        <param format="fasta" name="input" type="data" label="FASTA Input" />
    </inputs>
    <outputs>
        <data format="fasta" name="output" />
    </outputs>
    <help>
**What it does**

Given an input database, this tool will produce a target-decoy
database in the format required by PeptideShaker using dbtoolkit.

------

**Citation**

For the underlying tool, please cite `Martens et al. DBToolkit: processing protein databases for peptide-centric proteomics. Bioinformatics (2005) vol. 21 (17) pp. 3584-5`.

If you use this tool in Galaxy, please cite Chilton J, et al. https://bitbucket.org/galaxyp/peptideshaker .

    </help>
</tool>