OpenMS  2.4.0

Filters the top Peaks in the given spectra according to a given schema/thresholdset

pot. predecessor tools $ \longrightarrow $ SpectraFilter $ \longrightarrow $ pot. successor tools
PeakPickerWavelet any tool operating on MS peak data
(in mzML format)

The command line parameters of this tool are:

SpectraFilterThresholdMower -- Applies thresholdfilter to peak spectra.
Version: 2.4.0 Oct 29 2018, 15:52:19, Revision: 9690d06
To cite OpenMS:
  Rost HL, Sachsenberg T, Aiche S, Bielow C et al.. OpenMS: a flexible open-source software platform for mass spectrometry data analysis. Nat Meth. 2016; 13, 9: 741-748. doi:10.1038/nmeth.3959.

  SpectraFilterThresholdMower <options>

This tool has algorithm parameters that are not shown here! Please check the ini file for a detailed descript
ion or use the --helphelp option.

Options (mandatory options marked with '*'):
  -in <file>*        Input file  (valid formats: 'mzML')
  -out <file>*       Output file  (valid formats: 'mzML')
Common TOPP options:
  -ini <file>        Use the given TOPP INI file
  -threads <n>       Sets the number of threads allowed to be used by the TOPP tool (default: '1')
  -write_ini <file>  Writes the default configuration file
  --help             Shows options
  --helphelp         Shows all options (including advanced)

The following configuration subsections are valid:
 - algorithm   Algorithm parameter subsection.

You can write an example INI file using the '-write_ini' option.
Documentation of subsection parameters can be found in the doxygen documentation or the INIFileEditor.
Have a look at the OpenMS documentation for more information.

INI file documentation of this tool:

required parameter
advanced parameter
+SpectraFilterThresholdMowerApplies thresholdfilter to peak spectra.
version2.4.0 Version of the tool that generated this parameters file.
++1Instance '1' section for 'SpectraFilterThresholdMower'
in input file input file*.mzML
out output file output file*.mzML
log Name of log file (created only when specified)
debug0 Sets the debug level
threads1 Sets the number of threads allowed to be used by the TOPP tool
no_progressfalse Disables progress logging to command linetrue,false
forcefalse Overwrite tool specific checks.true,false
testfalse Enables the test mode (needed for internal use only)true,false
+++algorithmAlgorithm parameter subsection.
threshold0.05 Intensity threshold, peaks below this threshold are discarded