All functions
PPplot	Creates PP plot of two empirical distributions.
calculate_fdr	Calculates qvalues on the subset PSMs.
dpi0	Density function for the \(\pi_0\) distribution.
id_is_present	Checks if protein id appears in the headers of a fasta file.
parse_msgf_mzid	Parses a mzID file generated by MS-GF+.
pi0plot	Creates density plot of the pi0 distribution.
plot_diag	Plot diagnostic plots to evaluate assumptions from the search all, search subset strategy.
preprocess	Preprocess data from a MS-GF mzID file.
rpi0	Random generation for the \(\pi_0\) distribution.
saas_gui	Launches the GUI version of saas.
simulate_subset	Random generation of a dataset after TDA.