oneDgate: returns the labels stating the cluster of each row in a...

In fomotis/cyanoFilter: Phytoplankton Population Identification using Cell Pigmentation and/or Complexity

Description

returns the labels stating the cluster of each row in a flowfile.

Usage

oneDgate(flowfile, togate)

Arguments

flowfile	flowframe after debris are removed.
togate	channels detected to have more than one peak present. Provide by the getChannel function.

Value

list of indicators for cells above and below an estimated threshold

Examples

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 <- cyanoFilter::lnTrans(x = flowfile_noneg, 
c('SSC.W', 'TIME'))
oneDgate(flowfile, 'RED.B.HLin')

fomotis/cyanoFilter documentation built on Aug. 1, 2021, 10:58 p.m.