Groups corresponding features from multiple maps using a QT clustering approach.
| potential predecessor tools | FeatureLinkerUnlabeledQT | potential successor tools |
| FeatureFinderCentroided (or another feature detection algorithm) | ProteinQuantifier | |
| MapAlignerPoseClustering (or another map alignment algorithm) | TextExporter | |
| SeedListGenerator |
Reference:
Weisser et al.: An automated pipeline for high-throughput label-free quantitative proteomics (J. Proteome Res., 2013, PMID: 23391308).
This tool provides an algorithm for grouping corresponding features in multiple runs of label-free experiments. For more details and algorithm-specific parameters (set in the ini file) see "Detailed Description" in the algorithm documentation.
FeatureLinkerUnlabeledQT takes several feature maps (featureXML files) and stores the corresponding features in a consensus map (consensusXML file). Feature maps can be created from MS experiments (peak data) using one of the FeatureFinder TOPP tools.
The command line parameters of this tool are:
FeatureLinkerUnlabeledQT -- Groups corresponding features from multiple maps.
Version: 1.11.1 Nov 14 2013, 11:18:15, Revision: 11976
Usage:
FeatureLinkerUnlabeledQT <options>
This tool has algoritm parameters that are not shown here! Please check the ini file for a detailed descripti
on or use the --helphelp option.
Options (mandatory options marked with '*'):
-in <files>* Input files separated by blanks (valid formats: 'featureXML', 'consensusXML')
-out <file>* Output file (valid formats: 'consensusXML')
-keep_subelements For consensusXML input only: If set, the sub-features of the inputs are transferred to
the output.
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)
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.
Have a look at the OpenMS documentation for more information.
INI file documentation of this tool:
| OpenMS / TOPP release 1.11.1 | Documentation generated on Thu Nov 14 2013 11:19:24 using doxygen 1.8.5 |