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ERPairFinder

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

Util which can be used to evaluate pair ratios on enhanced resolution (zoom) scans.

Web Documentation for ERPairFinder

Options

version
Version of the tool that generated this parameters file.
precursor_mass_tolerance
Precursor mass tolerance which is used for the pair finding and the matching of the given pair m/z values to the features.
RT_tolerance
Maximal deviation in RT dimension in seconds a feature can have when comparing to the RT values given in the pair file
max_charge
Maximal charge state features should be search for.
intensity_threshold
Intensity threshold, for the meaning see the documentation of the IsotopeWaveletFeatureFinder documentation.
max_isotope
Max isotope of the isotope distribution to be considered
expansion_range
The range that is used to extend the isotope distribution with null intensity peaks in Th.
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 ER spectra. [mzML]
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Pair-file in the format: m/z-light m/z-heavy charge rt [txt]

Output Ports

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Output consensusXML file were the pairs of the feature are written into. [consensusXML]
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Output featureXML file, only written if given, skipped otherwise. [featureXML]

Views

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

Best Friends (Incoming)

Best Friends (Outgoing)

Installation

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

KNIME 4.2
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