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1 <tool id="pathprint-distance" name="Find Distance to Pluripotent Signature">
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2
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3 <!--
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4 <description>Find Distance to Pluripotent Signature</description>
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5 -->
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6
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7 <command>distance.r $input $output $output2</command>
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8
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9 <inputs>
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10 <param name="input" type="data" label="Pathway Fingerprint" help="Submit a PathPrint Fingerprint file from your history to determine how similar your experiment is to pluripotent samples in GEO"/>
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11 </inputs>
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12
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13 <outputs>
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14 <data format="tabular" name="output" label="Distance from pluripotent consensus"/>
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15 <data format="pdf" name="output2" label="Histogram"/>
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16 </outputs>
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17
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18 <stdio>
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19 <exit_code range="1:" level="fatal" />
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20 </stdio>
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21
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22 <help>
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23
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24 **What it does**
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25
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26 This tool takes the computed PathPrint Fingerprint as input and uses it to determine how similar
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27 your data are to a consensus signature generated from a set of pluripotent samples in GEO.
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28
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29 -----
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30
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31 **Input**: A PathPrint Fingerprint file from your history
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32
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33 **Output**:
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34
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35 1. Distance from pluripotent consensus: tab delimited file containing distance and p-value for each sample from the pluripotent consensus signature.
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36
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37 2. Histogram: PDF file containing two histograms: (1) distribution of distances for ~180,000 GEO samples from the pluripotent signature; (2) distribution of distances for the input samples from the pluripotent signature.
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38
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39 -----
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40
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41 Feedback is welcome. Please send your questions, comments and suggestions to scde@hsci.harvard.edu.
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42 </help>
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43 </tool>
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44
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