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OpenSwathConfidenceScoring

Generic Workflow Nodes for KNIME: OpenMS version 2.3.0.201712211252 by Freie Universitaet Berlin, Universitaet Tuebingen, and the OpenMS Team

Compute confidence scores for OpenSwath results

Web Documentation for OpenSwathConfidenceScoring

Options

version
Version of the tool that generated this parameters file.
decoys
Number of decoy assays to select from the library for every true assay (0 for "all")
transitions
Number of transitions per feature to consider (highest intensities first; 0 for "all")
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
Overwrite tool specific checks.
test
Enables the test mode (needed for internal use only)
intercept
Intercept term
delta_rt
Coefficient of retention time difference
dist_int
Coefficient of intensity distance

Input Ports

Input file (OpenSwath results) [featureXML]
Assay library [traML]
Retention time transformation [trafoXML,opt.]

Output Ports

Output file (results with confidence scores) [featureXML]

Views

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

Update Site

To use this node in KNIME, install Generic Workflow Nodes for KNIME: OpenMS from the following update site:

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