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required parameter
advanced parameter
+OpenSwathConfidenceScoringCompute confidence scores for OpenSwath results
version1.10.0
Version of the tool that generated this parameters file.
++1Instance '1' section for 'OpenSwathConfidenceScoring'
in
Input file (OpenSwath results)input file*.featureXML
lib
Assay libraryinput file*.traML
out
Output file (results with confidence scores)output file*.featureXML
trafo
Retention time transformationinput file*.trafoXML
decoys1000
Number of decoy assays to select from the library for every true assay (0 for "all")0:∞
transitions6
Number of transitions per feature to consider (highest intensities first; 0 for "all")0:∞
log
Name of log file (created only when specified)
debug0
Sets the debug level
threads1
Sets the number of threads allowed to be used by the TOPP tool
no_progressfalse
Disables progress logging to command linetrue,false
testfalse
Enables the test mode (needed for internal use only)true,false
+++GLMParameters of the binomial GLM
intercept3.87333466
Intercept term
delta_rt-0.02898629
Coefficient of retention time difference
dist_int-7.75880768
Coefficient of intensity distance