Genomic.Instability-package: Genomic.Instability

In SilvestriMR/Genomic.Instability: Genomic.Instability

Description

R package for the evaluation of Genomic Instability starting from Copy number alterations data. In particular it computes Large-scale state transitions (LST). LST is defined as the number of chromosomal breaks between adjacent regions of at least 10 Mb

Details

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R package for the evaluation of Genomic Instability starting from Copy number alterations data. In particular it computes Large-scale state transitions (LST). LST is defined as the number of chromosomal breaks between adjacent regions of at least 10 Mb.

Author(s)

Marco Silvestri

Maintainer: Marco Silvestri <[e-mail]>

References

S. B. Greene et al., <e2><80><9c>Chromosomal Instability Estimation Based on Next Generation Sequencing and Single Cell Genome Wide Copy Number Variation Analysis,<e2><80><9d> PLoS One, vol. 11, no. 11, p. e0165089, Nov. 2016.

T. Popova et al., <e2><80><9c>Ploidy and Large-Scale Genomic Instability Consistently Identify Basal-like Breast Carcinomas with BRCA1/2 Inactivation,<e2><80><9d> Cancer Res November 1 2012 (72) (21) 5454-5462

Examples

data(ratio)
MeasureLST(data=ratio, window = 639926, ID = "AA", workflow = "SS")

SilvestriMR/Genomic.Instability documentation built on May 23, 2019, 1:45 p.m.