/usr/local/tpp/bin/xinteract (TPP v5.0.0 Typhoon, Build 201710251406-7644 (Linux-x86_64))
PeptideProphet options [following the '-O']:
                 i [use icat information in PeptideProphet]
                 f [do not use icat information in PeptideProphet]
                 g [use N-glyc motif information in PeptideProphet]
                 H [use Phospho information in PeptideProphet]
                 m [maldi data]
                 I [use pI information in PeptideProphet]
                 R [use Hydrophobicity / RT information in PeptideProphet]
                 F [force the fitting of the mixture model, bypass automatic mixture model checks]
                 A [use accurate mass binning in PeptideProphet]
                 w [warning instead of exit with error if instrument types between runs is different]
                 x [exclude all entries with asterisked score values in PeptideProphet]
                 l [leave alone all entries with asterisked score values in PeptideProphet]
                 n [use hardcoded default initialization parameters of the distributions]
                 P [use Non-parametric model, can only be used with decoy option]
                 N [do not use the NTT model]
                 M [do not use the NMC model]
                 k [do not use the mass model]
                 o [optimize f-value function f(dot,delta) using PCA (applies only to SpectraST)]
                 G [use Gamma Distribution to model the Negatives (applies only to X!Tandem data)]
                 E [only use Expect Score as the Discriminant(applies only to X!Tandem data,
                    helpful for data with homologous top hits e.g. phospho or glyco)]
                 d [report decoy hits with a computed probability based on the model learned]
                 p [run ProteinProphet afterwards]
                 t [do not create png data plot]
                 u [do not assemble protein groups in ProteinProphet analysis]
                 s [do not use Occam's Razor in ProteinProphet analysis to
                    derive the simplest protein list to explain observed peptides]