[BioC] get parameters of estimateLogicle

[Samuel [guest]]

Hi,

I would to get the parameters a, w, m, t that the estimateLogicle computes. The question may be extended to how to get parameters from a transformList or a transformMap. What I would like, is a function that returns the same information as summary applied to a user defined transform.

Cheers.

> data(GvHD)
> samp <- GvHD[[1]]
> lgcl <- estimateLogicle(samp, channels = c("FL3-H", "FL4-H"))
> str(lgcl)
Formal class 'transformList' [package "flowCore"] with 2 slots
  ..@ transforms      :List of 2
  .. ..$ FL3-H:Formal class 'transformMap' [package "flowCore"] with 3 slots
  .. .. .. ..@ output: chr "FL3-H"
  .. .. .. ..@ input : chr "FL3-H"
  .. .. .. ..@ f     :function (x)  
  .. ..$ FL4-H:Formal class 'transformMap' [package "flowCore"] with 3 slots
  .. .. .. ..@ output: chr "FL4-H"
  .. .. .. ..@ input : chr "FL4-H"
  .. .. .. ..@ f     :function (x)  
  ..@ transformationId: chr "defaultTransformation"
> 
> lgcl <- logicleTransform(w = 0.74, t=2^18, m =4.5)
> str(lgcl)
Formal class 'transform' [package "flowCore"] with 2 slots
  ..@ transformationId: chr "defaultLogicleTransform"
  ..@ .Data           :function (x)  
> summary(lgcl)
$a
[1] 0

$k
transform object 'defaultLogicleTransform'

$m
[1] 4.5

$t
[1] 262144

$transformationId
[1] "defaultLogicleTransform"

$w
[1] 0.74


 -- output of sessionInfo(): 

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