Description Objects from the Class Slots Prototype Methods Author(s) References Examples
The CGHoptions class is built to store informations
regarding the methods used in the cghseg
package
Objects can be created by calls of the form new("CGHoptions")
.
select
:Model selection to select the number of
segments; "mBIC"
,"none"
(character)
calling
:calling of segments (logical)
wavenorm
:Wave normalization; "none"
,
"position"
, "spline"
(character)
GCnorm
:GCcontent normalization;
"none"
,"linear"
(character)
nblevels
:Number of levels when calling (numeric)
alpha
:Proportion of the individual signal length that gives uniKmax.
beta
:Proportion of the sum of uniKmax that gives multiKmax.
itermax
:Maximal number of iterations
nbprocs
:Number of available computer processes
CGHo = new('CGHoptions')
CGHo@select = "mBIC"
CGHo@calling = FALSE
CGHo@wavenorm = "position"
CGHo@GCnorm = "none"
CGHo@nblevels = 3
CGHo@alpha = 0.2
CGHo@beta = 0.5
CGHo@itermax = Inf
CGHo@nbprocs = 1
Accessor to slots of the class
to construct the class
Print CGHo
Show CGHo
Modification of slot select; select(CGHo)<-
Modification of slot calling; calling(CGHo)<-
Modification of slot wavenorm; wavenorm(CGHo)<-
Modification of slot GCnorm; GCnorm(CGHo)<-
Modification of slot nblevels; nblevels(CGHo)<-
Modification of slot alpha; alpha(CGHo)<-
Modification of slot beta; beta(CGHo)<-
Modification of slot itermax;
itermax(CGHo)<-
Modification of slot nbproc; nbproc(CGHo)<-
F. Picard, E. Lebarbier, M. Hoebeke, G. Rigaill, B. Thiam, S. Robin
Joint segmentation, calling and normalization of multiple CGH profiles, Biostatistics (2011)
1 2 | #CGHo = new("CGHoptions")
#showClass("CGHoptions")
|
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