man saint-spc-ctrl (1): run SAINT with control data

SYNOPSIS

saint-spc-ctrl [interactionFile] [preyFile] [baitFile] [nburnin] [niter] [lowMode] [minFold] [normalize]

: nburnin = 2000: number of burn-in iterations in MCMC.
: niter = 10000: number of main iterations in MCMC.
: lowMode = 0/1 : exclude extremely high counts in the model.
: - If baits are densely connected or dataset is small (few baits), use 1.
: - otherwise, use 0.
: minFold = 0/1 : forcing separation between true and false distributions.
: - If user wishes to allow typical contaminants with significant
: differential enrichment over control purifications, use 0.
: - otherwise, use 1.
: normalize = 0/1 : divide the counts by the total spectral counts in each IP.
: nburnin = 2000: number of burn-in iterations in MCMC.
: niter = 10000: number of main iterations in MCMC.
: lowMode = 0/1 : exclude extremely high counts in the model.
: - If baits are densely connected or dataset is small (few baits), use 1.
: - otherwise, use 0.
: minFold = 0/1 : forcing separation between true and false distributions.
: - If user wishes to allow typical contaminants with significant
: differential enrichment over control purifications, use 0.
: - otherwise, use 1.
: normalize = 0/1 : divide the counts by the total spectral counts in each IP.