invsplitscale-class {flowCore}R Documentation

Class "invsplitscale"

Description

The inverse split scale transformation is defined by the function

f(parameter,r,maxValue,transitionChannel)= frac{(parameter-b)}{a} ~~~~parameter<=t*a + b

frac{10^{parameter*frac{d}{r}}}{c} ~~~~ parameter > t*a+b

where,

b=frac{transitionChannel}{2}

d=frac{2*log_{10}(e)*r}{transitionChannel} + log_{10}(maxValue)

t=10^{log_{10}t}

a= frac{transitionChannel}{2*t}

log_{10}ct=frac{(a*t+b)*d}{r}

c=10^{log_{10}ct}

Objects from the Class

Objects can be created by calls to the constructor invsplitscale(parameters,r,maxValue,transitionChannel,transformationId)

Slots

.Data:
Object of class "function" ~~
r:
Object of class "numeric" -a positive value indicating the range of the logarithmical part of the display
maxValue:
Object of class "numeric" -a positive value indicating the maximum value the transformation is applied to
transitionChannel:
Object of class "numeric" -non negative value that indicates where to split the linear vs. logarithmical transformation
parameters:
Object of class "transformation" - flow parameter to be transformed
transformationId:
Object of class "character" -unique ID to reference the transformation

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.

Methods

No methods defined with class "invsplitscale" in the signature.

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

See Also

splitscale

Examples

  dat <- read.FCS(system.file("extdata","0877408774.B08",package="flowCore"))
  sp1<-invsplitscale("FSC-H",r=512,maxValue=2000,transitionChannel=512)
  transOut<-eval(sp1)(exprs(dat))

[Package flowCore version 1.10.0 Index]