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1 <?xml version="1.0" encoding="utf-8"?>
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2 <tool id="gff_unique_count" name="Count unique seq in GFF" version="@VERSION@">
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3 <description>Gives the non-redundant count of sequences</description>
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4 <macros>
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5 <import>motif_tools_macros.xml</import>
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6 </macros>
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7 <expand macro="requirements" />
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8 <command><![CDATA[
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9 perl $__tool_directory__/CountUniqueIDs.pl $input $output
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10 ]]></command>
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11 <inputs>
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12 <param format="gff" name="input" type="data" label="GFF file" help="Select a GFF file."/>
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13 </inputs>
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14 <outputs>
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15 <data format="txt" name="output" />
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16 </outputs>
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17
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18 <help>
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19 .. class:: infomark
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20
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21 **What it does**
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22
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23 This tool counts the number non-redundant sequence identifiers (seqname) in a GFF file. The tool was originally written to read a GFF file containing set of motif matches and report the number of sequences that contain one or more instances of the scanned motif.
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24
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25 ----
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26
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27 .. class:: infomark
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28
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29 **Options**
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30
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31 A GFF formated file is required.
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32
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33 ----
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34
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35 .. class:: infomark
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36
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37 **Credits**
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38
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39 This Galaxy tool has been developed within the Bioinformatics Core Facility at the University of Manchester. It runs the CountUniqueIDs.pl Perl script that was written by Ian Donaldson.
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40
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41 Please kindly acknowledge both this Galaxy tool and CountUniqueIDs.pl if you use it.
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42 </help>
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43
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44 </tool>
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45
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