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SpectraFilterParentPeakMower

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

Applies thresholdfilter to peak spectra.

Web Documentation for SpectraFilterParentPeakMower

Options

version
Version of the tool that generated this parameters file.
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)
window_size
The size of the m/z window where the peaks are removed, +/- window_size.
default_charge
If the precursor has no charge set, the default charge is assumed.
clean_all_charge_states
Set to 1 if precursor ions of all possible charge states should be removed.
consider_NH3_loss
Whether NH3 loss peaks from the precursor should be removed.
consider_H2O_loss
Whether H2O loss peaks from the precursor should be removed.
reduce_by_factor
Reduce the intensities of the precursor and related ions by a given factor (set 'set_to_zero' to 0).
factor
Factor which is used to reduce the intensities if 'reduce_by_factor' is selected.
set_to_zero
Reduce the intensities of the precursor and related ions to zero.

Input Ports

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input file [mzML]

Output Ports

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output file [mzML]

Views

SpectraFilterParentPeakMower Std Output
The text sent to standard out during the execution of SpectraFilterParentPeakMower.
SpectraFilterParentPeakMower Error Output
The text sent to standard error during the execution of SpectraFilterParentPeakMower. (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 4.2
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