lnTransform {flowCore}R Documentation

Create the definition of a ln transformation function (natural logarthim) to be applied on a data set

Description

Create the definition of the ln Transformation that will be applied on some parameter via the transform method. The definition of this function is currently x<-log(x)*(r/d). The transformation would normally be used to convert to a linear valued parameter to the natural logarithm scale. Typically r and d are both equal to 1.0. Both must be positive.

Usage

lnTransform(transformationId, r=1, d=1)

Arguments

transformationId character string to identify the transformation
r positive double that correponds to a scale factor.
d positive double that correponds to a scale factor

Value

Returns an object of class transform.

Author(s)

B. Ellis and N. LeMeur

See Also

transform-class, transform

Examples

  data(GvHD)
  lnTrans <- lnTransform(transformationId="ln-transformation", r=1, d=1)
  ln1 <- transform(GvHD,`FSC-H`=lnTrans(`FSC-H`))

opar = par(mfcol=c(2, 1))
plot(density(exprs(GvHD[[1]])[ ,1]), main="Original")
plot(density(exprs(ln1[[1]])[ ,1]), main="Ln Transform")


[Package flowCore version 1.0.2 Index]