This node is currently not available in KNIME v5.4 — instead we’re showing this page for KNIME v5.2. You can use the version menu in the title bar to permanently switch your preferred version. This will also show the link to the update site.

ERPairFinder

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

: Input mzML file containing the ER spectra. [mzML]
: Pair-file in the format: m/z-light m/z-heavy charge rt [txt]

Output Ports

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

Popular Predecessors

~~Input File~~100 %

Popular Successors

Output File100 %

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.)

Workflows

No workflows found

Developers

You want to see the source code for this node? Click the following button and we’ll use our super-powers to find it for you.

Installation

To use this node in KNIME, install the extension OpenMS from the below update site following our NodePit Product and Node Installation Guide:

v5.2

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

Plugin provider: Freie Universitaet Berlin, Universitaet Tuebingen, ZIB (GKN-Team) and the OpenMS Team

Plugin version: 3.0.0.202307112039

On NodePit since: 2023-12-06

Last update: 2024-12-25

KNIME versions: v5.2, v5.1, v4.7, v4.6, v4.5, v4.4, v4.3, v4.2, v4.1, v4.0, v3.7, v3.6

Deploy, schedule, execute, and monitor your KNIME workflows locally, in the cloud or on-premises – with our brand new NodePit Runner.

Try NodePit Runner!