A Forward-Backward Fragment-Annealing method for the segmentation of array-based copy number data

Description

The package contains a function doing segmentation. It also contains functions for processing SNP array data, as well as functions for displaying copy number data.

Details

Package:	FASeg
Type:	Package
Version:	2.0
Date:	2007-12-17
License:	GPL2 or later

Author(s)

Tianwei Yu (tyu8@sph.emory.edu) Maintainer: Tianwei Yu (tyu8@sph.emory.edu)

References

Yu T, Ye H, Sun W, Li KC, Chen Z, Jacobs S, Bailey DK, Wong D, Zhou X. (2007) A forward-backward fragment assembling algorithm for the identification of genomic amplification and deletion breakpoints using high-density single nucleotide polymorphism (SNP) array. BMC Bioinformatics 8:145. Huang, J., Wei, W., Zhang, J., Liu, G., Bignell, G.R., Stratton, M.R., Futreal, P.A., Wooster, R., Jones, K.W., & Shapero, M.H. (2004) Whole genome DNA copy number changes identified by high density oligonucleotide arrays. Hum Genomics, 1, 287-99.

See Also

Examples

data(sample.orig)
# sample.fitted<-faseg(sample.orig,sig=1e-6,no.change=2)
data(sample.fitted)
present.batch(sample.fitted,lwd=3)
present.batch(sample.fitted,each.chrom=TRUE,lwd=3)