OpenMS: SpectraFilterWindowMower

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

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

The command line parameters of this tool are:

SpectraFilterWindowMower -- Applies thresholdfilter to peak spectra.
Version: 1.10.0 Mar  7 2013, 08:30:22, Revision: unknown

Usage:
  SpectraFilterWindowMower <options>

This tool has algoritm parameters which can only be used via an INI file and are not accessible from the command line!

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 OpenMS documentation for more information.

INI file documentation of this tool:

Legend:

required parameter

advanced parameter

+SpectraFilterWindowMowerApplies thresholdfilter to peak spectra.

version1.10.0 Version of the tool that generated this parameters file.

++1Instance '1' section for 'SpectraFilterWindowMower'

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

testfalse Enables the test mode (needed for internal use only)true,false

+++algorithmAlgorithm parameter subsection.

windowsize50 The size of the sliding window along the m/z axis.

peakcount2 The number of peaks that should be kept.

For the parameters of the algorithm section see the class documentation:
OpenMS::WindowMower