getbgoutliers: getbgoutliers

In cghseg: Segmentation methods for array CGH analysis

Description

Identification of outliers in the background intensity

Usage

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

#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)

cghseg documentation built on May 2, 2019, 4:43 p.m.