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OpenSwathFeatureXMLToTSV

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

Converts a featureXML to a mProphet tsv.

Web Documentation for OpenSwathFeatureXMLToTSV

Options

version
Version of the tool that generated this parameters file.
short_format
Whether to write short (one peptide per line) or long format (one transition per line).
best_scoring_peptide
If only the best scoring feature per peptide should be printed, give the variable name
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 files separated by blank [featureXML]
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TraML transition file [traML]

Output Ports

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tsv output file (mProphet compatible) [csv]

Views

OpenSwathFeatureXMLToTSV Std Output
The text sent to standard out during the execution of OpenSwathFeatureXMLToTSV.
OpenSwathFeatureXMLToTSV Error Output
The text sent to standard error during the execution of OpenSwathFeatureXMLToTSV. (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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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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