addbs {flowTime} | R Documentation

## Add background subtraction to a summary data frame

### Description

Subtracts the background fluorescence of a given control strain from the chosen column.

### Usage

    addbs(flowData, column = "FL3.Amean", baseline_column = "strain",
      baseline = "noYFP")

### Arguments

`flowData` | the summary data frame of flowSet to be background subtracted
`column` | the column containing the fluorescent measurement to be background subtracted
`baseline_column` | the column containing the name of the strain representing background fluorescent values
`baseline` | `character` the name of the strain representing background fluorescent values

### Value

A summary data frame with an additional column "column_bs" containing the background subtracted fluorescent values

### Examples

    dat<-read.flowSet(path=system.file("extdata", "tc_example",
    package = "flowTime"),alter.names = TRUE)
    annotation <- read.csv(system.file("extdata", "tc_example.csv",
    package = "flowTime"))
    annotation[which(annotation$treatment == 0), 'strain'] <- 'background'
    adat <- annotateFlowSet(dat, annotation)
    loadGates(gatesFile = 'C6Gates')
    dat_sum <- summarizeFlow(adat, ploidy = 'diploid', only = 'singlets',
    channel = 'FL1.A')
    dat_sum <- addbs(dat_sum, column = "FL1.Amean", baseline = "background")

[Package flowTime version 1.12.0 Index]