view NoiseFilterGaussian.xml @ 3:ec62782f6c68 draft

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<?xml version='1.0' encoding='UTF-8'?>
<tool id="NoiseFilterGaussian" name="NoiseFilterGaussian" version="1.12.0">
  <description>Removes noise from profile spectra by using Gaussian filter (on uniform as well as non-uniform data).</description>
  <macros>
    <token name="@EXECUTABLE@">NoiseFilterGaussian</token>
    <import>macros.xml</import>
  </macros>
  <expand macro="stdio"/>
  <expand macro="requirements"/>
  <command>NoiseFilterGaussian

-in ${param_in}
-out ${param_out}
-processOption inmemory
-threads \${GALAXY_SLOTS:-24} 
-algorithm:gaussian_width ${param_gaussian_width}
-algorithm:ppm_tolerance ${param_ppm_tolerance}
${param_use_ppm_tolerance}
</command>
  <inputs>
    <param name="param_in" type="data" format="mzML" optional="False" label="input raw data file " help="(-in)"/>
    <param name="param_gaussian_width" type="float" value="0.2" label="Use a gaussian filter width which has approximately the same width as your mass peaks (FWHM in m/z)." help="(-gaussian_width)"/>
    <param name="param_ppm_tolerance" type="float" value="10.0" label="Gaussian width, depending on the m/z position.#br#The higher the value, the wider the peak and therefore the wider the gaussian." help="(-ppm_tolerance)"/>
    <param name="param_use_ppm_tolerance" type="boolean" truevalue="-algorithm:use_ppm_tolerance true" falsevalue="-algorithm:use_ppm_tolerance false" checked="false" optional="True" label="If true, instead of the gaussian_width value, the ppm_tolerance is used. The gaussian is calculated in each step anew, so this is much slower." help="(-use_ppm_tolerance)"/>
  </inputs>
  <outputs>
    <data name="param_out" label="output raw data file " format="mzML"/>
  </outputs>
  <help>**What it does**

Removes noise from profile spectra by using Gaussian filter (on uniform as well as non-uniform data).


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

@REFERENCES@
</help>
</tool>