OpenMS
2.6.0
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A tool for peak detection in profile data. Executes the peak picking with high_res algorithm.
pot. predecessor tools | PeakPickerIterative | pot. successor tools |
BaselineFilter | any tool operating on MS peak data (in mzML format) | |
NoiseFilterGaussian | ||
NoiseFilterSGolay |
The conversion of the ''raw'' ion count data acquired by the machine into peak lists for further processing is usually called peak picking. The choice of the algorithm should mainly depend on the resolution of the data. As the name implies, the high_res algorithm is fit for high resolution data.
The command line parameters of this tool are:
PeakPickerIterative -- Finds mass spectrometric peaks in profile mass spectra. Full documentation: http://www.openms.de/documentation/UTILS_PeakPickerIterative.html Version: 2.6.0 Sep 30 2020, 12:54:34, Revision: c26f752 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: PeakPickerIterative <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 UTIL 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 parameters section 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/UTILS_PeakPickerIterative.html
INI file documentation of this tool: