OpenMS
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Extract extended statistics on the features of a map for quality control.
pot. predecessor tools | → MapStatistics → | pot. successor tools |
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FeatureFinder, FeatureMatcher | - |
This tool computes some basic statistics on the features of a map that are frequently used for quality control.
Information displayed includes:
The command line parameters of this tool are:
MapStatistics -- Extract extended statistics on the features of a map for quality control. Full documentation: http://www.openms.de/doxygen/release/3.2.0/html/TOPP_MapStatistics.html Version: 3.2.0 Nov 26 2024, 13:16:38, Revision: 962e60f To cite OpenMS: + Pfeuffer, J., Bielow, C., Wein, S. et al.. OpenMS 3 enables reproducible analysis of large-scale mass spec trometry data. Nat Methods (2024). doi:10.1038/s41592-024-02197-7. Usage: MapStatistics <options> Options (mandatory options marked with '*'): -in <file>* Input file (valid formats: 'featureXML', 'consensusXML') -in_type <type> Input file type -- default: determined from file extension or content (valid: 'featureXM L', 'consensusXML') -out <file> Optional output txt file. If empty, the output is written to the command line. (valid formats: 'txt') -n <n> Report separate statistics for each of n RT slices of the map. (default: '4') (min: '1' max: '100') -m Show meta information about the whole experiment -p Shows data processing information -s Computes a summary statistics of intensities, qualities, and widths 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)
INI file documentation of this tool: