getbgoutliers

Description

Identification of outliers in the background intensity

Usage

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getbgoutliers(.Object,CGHr.smooth,fdr)

Arguments

.Object

an object of the CGHresults class for which CGHo["wavenorm"]="position"

CGHr.smooth

an object of the CGHresults class for which CGHo["wavenorm"] is "spline"

fdr

fdr level to control for multiple testing

Value

bgoutliers

dataframe containing background outliers

Author(s)

F. Picard, E. Lebarbier, M. Hoebeke, G. Rigaill, B. Thiam, S. Robin

References

Joint segmentation, calling and normalization of multiple CGH profiles, Biostatistics (2011)

Examples

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#set.seed(1)
#simul          = simulprofiles(M=5,n=100,k.mean=2,SNR=5,lambda=1)
#CGHd           = new("CGHdata",Y=simul$Y)
#CGHo           = new("CGHoptions")
#calling(CGHo)  = FALSE
#wavenorm(CGHo) = "position"
#CGHr.pos       = multiseg(CGHd,CGHo)
#wavenorm(CGHo) = "spline"
#CGHr.spl       = multiseg(CGHd,CGHo)
#getbgoutliers(CGHr.pos,CGHr.spl,fdr=0.05)