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OpenSwathDIAPreScoring

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

Scoring spectra using the DIA scores.

Web Documentation for OpenSwathDIAPreScoring

Options

version
Version of the tool that generated this parameters file.
min_upper_edge_dist
Minimal distance to the edge to still consider a precursor, in Thomson (only in SWATH)
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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transition file [traML]
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Swath files that were used to extract the transitions. If present, SWATH specific scoring will be applied. [mzML]

Output Ports

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Output files. One per Swath input file. [tsv]

Views

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

Installation

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

KNIME 4.2

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

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Developers

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