annotate galaxy-conf/GaussianSmooth.xml @ 25:b43c420a6135 draft default tip

Incorporate fix: https://github.com/timpalpant/java-genomics-toolkit/commit/9a6c61b7c6b8d85a1cd3f595eed657a537b85dc9
author timpalpant
date Sat, 09 Feb 2019 14:02:24 -0500
parents 9d56b5b85740
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1 <tool id="WigGaussianSmooth" name="Gaussian smooth" version="1.1.0">
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2 <description>a (Big)Wig file</description>
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3 <command interpreter="bash">galaxyToolRunner.sh wigmath.GaussianSmooth -i $input -s $S -o $output</command>
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4 <inputs>
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5 <param name="input" type="data" format="bigwig,wig" label="Smooth the data in" />
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6 <param name="S" type="integer" value="20" optional="true" label="Standard deviation of the Gaussian in base pairs" />
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7 </inputs>
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8 <outputs>
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9 <data format="wig" name="output" metadata_source="input" />
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10 </outputs>
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11 <tests>
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12 <test>
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13 <param name="input" value="wigmath1.wig"/>
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14 <param name="S" value="20"/>
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15 <output name="output" file="gaussian1.wig"/>
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16 </test>
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17 <test>
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18 <param name="input" value="wigmath2.bw"/>
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19 <param name="S" value="3"/>
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20 <output name="output" file="gaussian2.wig"/>
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21 </test>
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22 <test>
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23 <param name="input" value="wigmath3.wig"/>
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24 <param name="S" value="40"/>
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25 <output name="output" file="gaussian3.wig"/>
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26 </test>
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27 </tests>
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28
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29 <help>
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30
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31 This tool smooths genomic data with an area-preserving Gaussian_ filter. The Gaussian filter is computed out to +/- 3 standard deviations.
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33 .. _Gaussian: http://en.wikipedia.org/wiki/Gaussian_filter
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35 .. class:: infomark
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36
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37 **TIP:** If your dataset does not appear in the pulldown menu, it means that it is not in Wig or BigWig format. Use "edit attributes" to set the correct format if it was not detected correctly.
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39 </help>
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40 </tool>