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MapRTTransformer

Applies retention time transformations to maps.

potential predecessor tools $ \longrightarrow $ MapRTTransformer $ \longrightarrow $ potential successor tools
MapAlignerIdentification
(or another alignment algorithm)
FeatureLinkerUnlabeled or
FeatureLinkerUnlabeledQT

This tool can apply retention time transformations to different types of data (mzML, featureXML, consensusXML, and idXML files). The transformations might have been generated by a previous invocation of one of the MapAligner tools (linked below). However, the trafoXML file format is not very complicated, so it is relatively easy to write (or generate) your own files.

See Also
MapAlignerIdentification MapAlignerPoseClustering MapAlignerSpectrum

With this tool it is also possible to invert transformations, or to fit a different model than originally specified to the retention time data in the transformation files. To fit a new model, choose a value other than "none" for the model type (see below).

Since OpenMS 1.8, the extraction of data for the alignment has been separate from the modeling of RT transformations based on that data. It is now possible to use different models independently of the chosen algorithm. The different available models are:

The following parameters control the modeling of RT transformations (they can be set in the "model" section of the INI file):

The command line parameters of this tool are:

 

OpenMS / TOPP release 1.9.0 Documentation generated on Tue May 28 2013 12:41:58 using doxygen 1.8.3.1