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annotate galaxy-conf/GeneTrackToBedGraph.xml @ 15:3e477c7e0e73 draft

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Update normalization tools to allow normalizing by chromosome (Z-scorer, scale, etc.) Add new tool to convert any interval file to Bed format. Miscellaneous bug fixes.
author timpalpant
date Sat, 09 Jun 2012 16:03:59 -0400
parents eb53be9a09f4
children
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3e477c7e0e73 Update normalization tools to allow normalizing by chromosome (Z-scorer, scale, etc.) Add new tool to convert any interval file to Bed format. Miscellaneous bug fixes.
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1 <tool id="GeneTrackToBedGraph" name="GeneTrack to BedGraph" version="1.1.0">
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2 <description>converter</description>
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3 <command interpreter="sh">galaxyToolRunner.sh converters.GeneTrackToBedGraph -i $input -o $output</command>
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4 <inputs>
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5 <param name="input" type="data" format="tabular" label="Input GeneTrack index" />
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6 </inputs>
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7 <outputs>
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8 <data name="output" format="bedgraph" metadata_source="input" />
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9 </outputs>
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10 <tests>
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11 <test>
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12 <param name="input" value="test.genetrack" ftype="tabular"/>
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13 <output name="output" file="geneTrackToBedGraph.bedGraph"/>
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14 </test>
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15 </tests>
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16 <help>
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18 This tool will sum the counts from the forward and reverse strands in a GeneTrack_ index to create a BedGraph file.
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81d5b81fb3c2 Added help for all tools in the toolkit. Many bug fixes and a few new nucleosome tools.
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20 .. _GeneTrack: http://atlas.bx.psu.edu/genetrack/docs/genetrack.html
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22 .. class:: warningmark
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24 This tool requires GeneTrack formatted data. If you have tabular data that was not correctly autodetected, change the metadata by clicking on the pencil icon for the dataset.
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25
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26 </help>
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27 </tool>