| OpenMS 2.5.0

SpectraFilterScaler

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

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

The command line parameters of this tool are:

    SpectraFilterScaler -- Applies thresholdfilter to peak spectra.

    Full documentation: http://www.openms.de/documentation/TOPP_SpectraFilterScaler.html

    Version: 2.5.0-GIT-NOTFOUND-GIT-NOTFOUND Sep 10 2020, 12:20:39, Revision: GIT-NOTFOUND

    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.

    Usage:

      SpectraFilterScaler <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.

    For more information, please consult the online documentation for this tool:

      - http://www.openms.de/documentation/TOPP_SpectraFilterScaler.html

INI file documentation of this tool:

Legend:
required parameter
advanced parameter
+SpectraFilterScaler Applies thresholdfilter to peak spectra.
version 2.5.0-GIT-NOTFOUND-GIT-NOTFOUND Version of the tool that generated this parameters file.
++1 Instance '1' section for 'SpectraFilterScaler'
in input file input file*.mzML
out output file output file*.mzML
log Name of log file (created only when specified)
debug 0 Sets the debug level
threads 1 Sets the number of threads allowed to be used by the TOPP tool
no_progress false Disables progress logging to command line true,false
force false Overwrite tool specific checks.true,false
test false Enables the test mode (needed for internal use only)true,false