OpenMS
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Repairs MALDI experiments which were spotted line by line.
The command line parameters of this tool are:
DeMeanderize -- Orders the spectra of MALDI spotting plates correctly. Full documentation: http://www.openms.de/doxygen/release/3.3.0/html/TOPP_DeMeanderize.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: DeMeanderize <options> Options (mandatory options marked with '*'): -in <mzML-file>* Input experiment file, containing the wrongly sorted spectra. (valid formats: 'mzML') -out <mzML-file>* Output experiment file with correctly sorted spectra. (valid formats: 'mzML') -num_spots_per_row <integer> Number of spots in one column, until next row is spotted. (default: '48') (min: '1') 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: