segmented_signal {SegCorr}

Mean Segmentation

Description

Mean segmentation on the genomic signal is performed using the Fpsn function of the jointseg package.

Usage

segmented_signal(SNP.Chr, Kmax)

Arguments

SNP.Chr

SNP/CGH profile matrix for a given chromosome (NA's not allowed). Columns correspond to patients and rows to probes.

Kmax

Maximum number of segments.

Value

Smoothed genomic signal matrix. Rows correspond to probes and columns to patients.

Author(s)

E. I. Delatola, E. Lebarbier, T. Mary-Huard, F. Radvanyi, S. Robin, J. Wong.

References

Morgane Pierre-Jean, Guillem Rigaill and Pierre Neuvial. Performance evaluation of DNA copy number segmentation methods. Briefings in Bioinformatics (2015) 16 (4): 600-615.

See Also

CNV_correction, Fpsn

Examples

#data(SNP)
#mu.SNP = segmented_signal(SNP ,100)