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1 <tool id="fasta-stats" name="Fasta Statistics" version="1.0.0">
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2 <description>Display summary statistics for a fasta file.</description>
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3 <command interpreter="perl">
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4 fasta-stats.pl $dataset > $stats
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5 </command>
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6 <inputs>
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7 <param name="dataset" type="data" format="fasta" label="fasta or multifasta file" help="fasta dataset to get statistics for."/>
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8 </inputs>
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9 <outputs>
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10 <data name="stats" format="tabular" label="${tool.name} on ${on_string}: Fasta summary stats"/>
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11 </outputs>
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12
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13 <help>
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14 **Fasta Stats**
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15 Displays the summary statistics for a fasta file.
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16
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17 Written by Torsten Seemann - Victorian Bioinformatics Consortium
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18
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19 Wrapped by Simon Gladman - Victorian Bioinformatics Consortium
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20
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21 ------
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22
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23 Outputs in tabular form:
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24 Lengths: n50, min, max, median and average
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25
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26 Number of base pairs: A, C, G, T, N, Total and Total_not_N
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27
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28 Number of sequences
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29
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30 GC content in %
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31
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32 ------
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33
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34 Inputs:
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35
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36 Fasta dataset
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37 </help>
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38 </tool>
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