logicleTransform {flowCore}R Documentation

Compute a transform using the 'logicle' function

Description

Logicle transformation create a subset of link[flowCore]biexponential

Usage

logicleTransform(transformationId, w = 0, r = 262144, d = 5, ...)

Arguments

transformationId A name to assign to the transformation. Used by the transform/filter integration routines.
w positive number that corresponds to the width of the negative data range and the range of linearized datain natural log
r top of the scale data value, e.g, 10000 for common 4 decade data or 262144 for a 18 bit data range.
d breath of the display in natural logarithm units.
... additional arguments

Author(s)

B. Ellis N. LeMeur

References

Parks D.R., Roederer M., Moore W.A.(2006) A new "Logicle" display method avoids deceptive effects of logarithmic scaling for low signals and compensated data. CytometryA, 96(6):541-51.

See Also

biexponential

Examples

data(GvHD)
samp <- read.FCS(system.file("extdata",
  "0877408774.B08", package="flowCore"))
samp <- GvHD[[1]] 
logicle  <- logicleTransform(w=2)
after <- transform(samp, `FSC-H`=logicle(`FSC-H`))
  

[Package flowCore version 1.0.2 Index]