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required parameter
advanced parameter
+IDDecoyProbabilityEstimates peptide probabilities using a decoy search strategy.
WARNING: This util is deprecated.
version1.10.0
Version of the tool that generated this parameters file.
++1Instance '1' section for 'IDDecoyProbability'
in
Identification input of combined forward decoy search (reindex with PeptideIndexer first)input file*.idXML
fwd_in
Identification input of forward runinput file*.idXML
rev_in
Identification input of decoy runinput file*.idXML
out
Identification output with forward scores converted to probabilitiesoutput file*.idXML
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
+++decoy_algorithmAlgorithm parameter subsection
number_of_bins40
Number of bins used for the fitting, if sparse datasets are used, this number should be smaller
lower_score_better_default_value_if_zero50
This value is used if e.g. a E-value score is 0 and cannot be transformed in a real number (log of E-value)