hyperlog-class: Class "hyperlog"

In RGLab/flowCore: flowCore: Basic structures for flow cytometry data

Class "hyperlog"

Description

Hyperlog transformation of a parameter is defined by the function

f(parameter,a,b)=root{EH(y,a,b)-parameter}

where EH is a function defined by

EH(y,a,b) = 10^{(\frac{y}{a})} + \frac{b*y}{a}-1, y>=0

EH(y,a,b)= -10^{(\frac{-y}{a})} + \frac{b*y}{a}+1, y<0

Slots

.Data

Object of class "function".

a

Object of class "numeric" – numeric constant treater than zero.

b

Object of class "numeric" numeric constant greater than zero.

parameters

Object of class "transformation" – flow parameter to be transformed.

transformationId

Object of class "character" – unique ID to reference the transformation.

Objects from the Class

Objects can be created by calls to the constructor hyperlog(parameter,a,b,transformationId)

Extends

Class "singleParameterTransform", directly.

Class "transform", by class "singleParameterTransform", distance 2.

Class "transformation", by class "singleParameterTransform", distance 3.

Class "characterOrTransformation", by class "singleParameterTransform", distance 4.

Note

The transformation object can be evaluated using the eval method by passing the data frame as an argument.The transformed parameters are returned as a matrix with a single column. (See example below)

Author(s)

Gopalakrishnan N, F.Hahne

References

Gating-ML Candidate Recommendation for Gating Description in Flow Cytometry V 1.5

See Also

EHtrans

Other mathematical transform classes: EHtrans-class, asinht-class, asinhtGml2-class, dg1polynomial-class, exponential-class, hyperlogtGml2-class, invsplitscale-class, lintGml2-class, logarithm-class, logicletGml2-class, logtGml2-class, quadratic-class, ratio-class, ratiotGml2-class, sinht-class, splitscale-class, squareroot-class, unitytransform-class

Examples

  dat <- read.FCS(system.file("extdata","0877408774.B08",
  package="flowCore"))
  hlog1<-hyperlog("FSC-H",a=1,b=1,transformationId="hlog1")
  transOut<-eval(hlog1)(exprs(dat))

RGLab/flowCore documentation built on Aug. 26, 2024, 8:52 a.m.