openCyto (version 1.10.3)

quadGate.tmix: quadGate based on flowClust::tmixFiler

Description

This gating method identifies two quadrants (first, and third quadrants) by fitting the data with tmixture model. It is particually useful when the two markers are not well resolved thus the regular quadGate method based on 1d gating will not find the perfect cut points on both dimensions.

Usage

quadGate.tmix(fr, channels, K, usePrior = "yes", prior = list(NA),
  quantile1 = 0.8, quantile3 = 0.8, trans = 0, plot = FALSE, ...)

Arguments

fr

flowFrame

channels

character vector specifies two channels

K

see flowClust.2d

usePrior

see flowClust.2d

prior

see flowClust.2d

quantile1

numeric specifies the quantile level(see 'level' in flowClust) for the first quadrant (x-y+)

quantile3

numeric specifies the quantile level see 'level' in flowClust for third quadrant (x+y-)

trans

see flowClust.2d

plot

logical whether to plot flowClust clustering results

...

other arguments passed to flowClust

Value

• a filters object that contains four polygonGates following the order of (-+,++,+-,--)