Vega (version 1.20.0)

Vega-package: An R package for copy number data segmentation

Description

Vega (Variational Estimator for Genomic Aberrations) is an algorithm that adapts a very popular variational model (Mumford and Shah) used in image segmentation so that chromosomal aberrant regions can be efficiently detected.

Details

Package:

Vega

Type:

Package

Version:

1.0

License:

GPL-2

LazyLoad:

yes

biocViews:

aCGH, DNACopyNumber

References

Morganella S. et al. (2010). VEGA: Variational segmentation for copy number detection, Bioinformatics.

Examples

# Load tha data for Granta-519 Cell Line
data(G519);

# Start Vega segmentation on all chromosomes of G519 data and save the results in G519_segmentation.txt tab delimited file
seg <- vega(CNVdata=G519, chromosomes=c(1:22, "X", "Y"), out_file_name="G519_segmentation.txt", beta=0.5, min_region_size=2);