OpenMS
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Calculates the TIC of a raw mass spectrometric file.
This class was developed to benchmark multiple methods inside OpenMS for reading raw mass spectrometric data. It can be used for benchmarking these different methods as well as benchmarking external tools. Of course you can also calculate the TIC with this tool.
The command line parameters of this tool are:
Memory consumption before 30592 TICCalculator -- Calculates the TIC from a mass spectrometric raw file (useful for benchmarking). Full documentation: http://www.openms.de/doxygen/release/3.3.0/html/TOPP_TICCalculator.html Version: 3.3.0 Dec 21 2024, 15:25:20, Revision: 35c5e65 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: TICCalculator <options> Options (mandatory options marked with '*'): -in <file>* Input file to convert. (valid formats: 'mzData', 'mzXML', 'mzML', 'cachedMzML', 'dta ', 'dta2d', 'mgf', 'featureXML', 'consensusXML', 'ms2', 'fid', 'tsv', 'peplist', 'kroenik', 'edta') -in_type <type> Input file type -- default: determined from file extension or content (valid: 'mzData', 'mzXML', 'mzML', 'cachedMzML', 'dta', 'dta2d', 'mgf', 'featureXML ', 'consensusXML', 'ms2', 'fid', 'tsv', 'peplist', 'kroenik', 'edta') -read_method <method> Method to read the file (default: 'regular') (valid: 'regular', 'indexed', 'indexed_ parallel', 'streaming', 'cached', 'cached_parallel') -loadData <method> Whether to actually load and decode the binary data (or whether to skip decoding the binary data) (default: 'true') (valid: 'true', 'false') 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) Memory consumption final 30976
INI file documentation of this tool: