<tool id="genometric_correlation" name="Genometric Correlation">
<description>between two files of genomic intervals</description>
<command interpreter="Rscript --vanilla">
Start_GenometriCorr.R $config $query $reference $output_options $output
</command>
<inputs>
<param format="text" name="config" type="data" label="Configuration file"/>
<param format="text" name="query" type="data" label="Query intervals file"/>
<param format="text" name="reference" type="data" label="Reference intervals file"/>
<param name="output_options" type="select" label="Type of output">
<option value="plot">ECDF plots</option>
<option value="vis">Graphic visualization</option>
<option value="stats">Text output of statistics</option>
<option value="plot_vis">All</option>
</param>
</inputs>
<outputs>
<data name="output" format="pdf"/>
</outputs>
<help>
This tool determines the statistical relationship (if any) between two sets of genomic intervals. Output can be text only, plot (ECDF curves), or a more colorful graphic.
</help>
</tool>