FeatureLinkerLabeled

Generic Workflow Nodes for KNIME: OpenMS version 2.4.0.201810261314 by Freie Universitaet Berlin, Universitaet Tuebingen, and the OpenMS Team

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

Overwrite tool specific checks.

test

Enables the test mode (needed for internal use only)

rt_estimate

If 'true' the optimal RT pair distance and deviation are estimated by fitting a gaussian distribution to the histogram of pair distance. Note that this works only datasets with a significant amount of pairs! If 'false' the parameters 'rt_pair_dist', 'rt_dev_low' and 'rt_dev_high' define the optimal distance.

rt_pair_dist

optimal pair distance in RT [sec] from light to heavy feature

rt_dev_low

maximum allowed deviation below optimal retention time distance

rt_dev_high

maximum allowed deviation above optimal retention time distance

mz_pair_dists

optimal pair distances in m/z [Th] for features with charge +1 (adapted to +2, +3, .. by division through charge)

mz_dev

maximum allowed deviation from optimal m/z distance

mrm

this option should be used if the features correspond mrm chromatograms (additionally the precursor is taken into account)

Input Ports

Input file [featureXML]

Output Ports

Output file [consensusXML]

Views

FeatureLinkerLabeled Std Output

The text sent to standard out during the execution of FeatureLinkerLabeled.

FeatureLinkerLabeled Error Output

The text sent to standard error during the execution of FeatureLinkerLabeled. (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 Generic Workflow Nodes for KNIME: OpenMS from the following update site: