view OpenSwathDIAPreScoring.xml @ 3:ec62782f6c68 draft

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<?xml version='1.0' encoding='UTF-8'?>
<tool id="OpenSwathDIAPreScoring" name="OpenSwathDIAPreScoring" version="1.12.0">
  <description>Scoring spectra using the DIA scores.</description>
  <macros>
    <token name="@EXECUTABLE@">OpenSwathDIAPreScoring</token>
    <import>macros.xml</import>
  </macros>
  <expand macro="stdio"/>
  <expand macro="requirements"/>
  <command>OpenSwathDIAPreScoring

-tr ${param_tr}
-out ${param_out}
-swath_files ${param_swath_files}
-min_upper_edge_dist ${param_min_upper_edge_dist}
-threads \${GALAXY_SLOTS:-24} 
</command>
  <inputs>
    <param name="param_tr" type="data" format="" optional="False" label="transition file" help="(-tr)"/>
    <param name="param_swath_files" type="data" format="mzML" optional="True" size="20" label="Swath files that were used to extract the transitions. If present, SWATH specific scoring will be applied." help="(-swath_files)"/>
    <param name="param_min_upper_edge_dist" type="float" value="0.0" label="Minimal distance to the edge to still consider a precursor, in Thomson (only in SWATH)" help="(-min_upper_edge_dist)"/>
  </inputs>
  <outputs>
    <data name="param_out" label="output file" format="data"/>
  </outputs>
  <help>**What it does**

Scoring spectra using the DIA scores.


For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/TOPP_OpenSwathDIAPreScoring.html

@REFERENCES@
</help>
</tool>