MarginEvents {cyanoFilter} | R Documentation |
the marginEvent class
constructor for the MarginEvents class
MarginEvents( fullflowframe, reducedflowframe, N_margin, N_nonmargin, N_particle, Channel, y_toplot, cut ) MarginEvents( fullflowframe, reducedflowframe, N_margin, N_nonmargin, N_particle, Channel, y_toplot, cut )
fullflowframe |
same as the input flowFrame |
reducedflowframe |
a partial flowframe containing non-margin events |
N_margin |
number of margin particles measured |
N_nonmargin |
number of non-margine particles |
N_particle |
total number of particles measured |
Channel |
channel measuring the width of the particles |
y_toplot |
another channel to use in a bivariate plot |
cut |
the cut-off point estimated or supplied. |
object of class MarginEvents
fullflowframe
object of class "flowFrame" same as the input flowFrame
reducedflowframe
object of class "flowFrame" a partial flowframe containing a proportion of the measured particles
N_margin
object of class "numeric" representing the proportion of particles in each cluster
N_nonmargin
object of class "integer" representing the number of particles in each cluster
N_particle
object of class "integer" representing the labels for each cluster
Channel
object of class character representing channel measuring cell width
y_toplot
object of class character representing plot variable
cut
object of class numberic representing estimated inflection point or supplied cut-off point
flowfile_path <- system.file("extdata", "B4_18_1.fcs", package = "cyanoFilter", mustWork = TRUE) flowfile <- flowCore::read.FCS(flowfile_path, alter.names = TRUE, transformation = FALSE, emptyValue = FALSE, dataset = 1) flowfile_nona <- cyanoFilter::noNA(x = flowfile) flowfile_noneg <- cyanoFilter::noNeg(x = flowfile_nona) flowfile_logtrans <- lnTrans(x = flowfile_noneg, c('SSC.W', 'TIME')) cellMargin(flowframe = flowfile_logtrans, Channel = 'SSC.W', type = 'estimate', y_toplot = "FSC.HLin")