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PrecursorMassCorrector

Generic Workflow Nodes for KNIME: OpenMS version 2.6.0.202009301213 by Freie Universitaet Berlin, Universitaet Tuebingen, and the OpenMS Team

Corrects the precursor entries of MS/MS spectra, by using MS1 information.

Web Documentation for PrecursorMassCorrector

Options

version
Version of the tool that generated this parameters file.
precursor_mass_tolerance
Maximal deviation in Th which is acceptable to be corrected; this value should be set to the instruments selection window.
max_charge
Maximal charge that should be assumed for precursor peaks
intensity_threshold
Intensity threshold value for isotope wavelet feature finder, please look at the documentation of the class for details.
log
Name of log file (created only when specified)
debug
Sets the debug level
threads
Sets the number of threads allowed to be used by the TOPP tool
no_progress
Disables progress logging to command line
force
Overrides tool-specific checks
test
Enables the test mode (needed for internal use only)

Input Ports

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Input mzML file containing the spectra. [mzML]
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Input featureXML file, containing features; if set, the MS/MS spectra precursor entries #br#will be matched to the feature m/z values if possible. [featureXML,opt.]

Output Ports

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Output mzML file. [mzML]

Views

PrecursorMassCorrector Std Output
The text sent to standard out during the execution of PrecursorMassCorrector.
PrecursorMassCorrector Error Output
The text sent to standard error during the execution of PrecursorMassCorrector. (If it appears in gray, it's the output of a previously failing run which is preserved for your trouble shooting.)

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Best Friends (Outgoing)

Installation

To use this node in KNIME, install OpenMS from the following update site:

KNIME 4.3

A zipped version of the software site can be downloaded here.

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Developers

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