Normalization of intensities in a set of maps using robust regression.
potential predecessor tools | ![]() ![]() | potential successor tools |
FeatureLinkerUnlabeled (or another feature grouping tool) | ProteinQuantifier | |
TextExporter |
The tool normalizes the intensities of a set of maps (consensusXML file). The following normalization algorithms are available:
The command line parameters of this tool are:
ConsensusMapNormalizer -- Normalizes maps of one consensusXML file Version: 2.0.0 May 16 2015, 09:22:21, Revision: GIT-NOTFOUND Usage: ConsensusMapNormalizer <options> Options (mandatory options marked with '*'): -in <file>* Input file (valid formats: 'consensusXML') -out <file>* Output file (valid formats: 'consensusXML') -algorithm_type <type> The normalization algorithm that is applied. (default: 'robust_regression' valid: 'robust_regression', 'median', 'quantile') -ratio_threshold <ratio> Only for 'robust_regression': the parameter is used to distinguish between non-ou tliers (ratio_threshold < intensity ratio < 1/ratio_threshold) and outliers. (def ault: '0.67' min: '0.001' max: '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:
OpenMS / TOPP release 2.0.0 | Documentation generated on Sat May 16 2015 16:13:42 using doxygen 1.8.9.1 |