pair_plot: plots the expression matrix of a flowframe. Note that, it...

In cyanoFilter: Cyanobacteria Population Identification for Flow Cytometry

Description

plots the expression matrix of a flowframe. Note that, it takes some time to display the plot.

Usage

pair_plot(flowfile, notToPlot = c("TIME"))

Arguments

flowfile	flowframe to be plotted
notToPlot	column in expression matrix not to be plotted

Examples

flowfile_path <- system.file("extdata", "text.fcs", package = "cyanoFilter",
              mustWork = TRUE)
flowfile <- flowCore::read.FCS(flowfile_path, alter.names = TRUE,
                               transformation = FALSE, emptyValue = FALSE,
                               dataset = 1) #FCS file contains only one data object
flowfile_nona <- cyanoFilter::nona(x = flowfile)
flowfile_noneg <- cyanoFilter::noneg(x = flowfile_nona)
flowfile_logtrans <- lnTrans(x = flowfile_noneg, c('SSC.W', 'TIME'))
pair_plot(x = flowfile_logtrans,
          notToPlot = c("TIME", "FSC.HLin", "RED.R.HLin", "NIR.R.HLin"))

cyanoFilter documentation built on Jan. 9, 2020, 5:08 p.m.