comparison fasta-stats.xml @ 1:3eca3cb79e74 draft default tip

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<tool id="fasta-stats" name="Fasta Statistics" version="1.0.0">
    <description>Display summary statistics for a fasta file.</description>
    <command interpreter="perl">
        fasta-stats.pl $dataset > $stats
    </command>
    <inputs>
        <param name="dataset" type="data" format="fasta" label="fasta or multifasta file" help="fasta dataset to get statistics for."/>
    </inputs>
    <outputs>
        <data name="stats" format="tabular" label="${tool.name} on ${on_string}: Fasta summary stats"/>
    </outputs>
    
    <help>
**Fasta Stats**
Displays the summary statistics for a fasta file.

Written by Torsten Seemann - Victorian Bioinformatics Consortium

Wrapped by Simon Gladman - Victorian Bioinformatics Consortium

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Outputs in tabular form:
    Lengths: n50, min, max, median and average
    
    Number of base pairs: A, C, G, T, N, Total and Total_not_N
    
    Number of sequences
    
    GC content in %

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Inputs:

Fasta dataset    
    </help>
</tool>