CGHnormaliter-package


  CGHnormaliter is an iterative algorithm for normalization of aCGH data displaying imbalanced aberrations. First, provisory balanced copy numbers are identified and subsequently used for normalization based on LOWESS. These two steps are then iterated to refine the normalization. The assumption here is that the temporary exclusion of aberrations allows for a more appropriate calculation of the LOWESS regression curve. As a result, after normalization, the log2 intensity ratios of the normals will generally be closer to zero and better reflect the biological reality.


package

Normalization and centralization of array comparative genomic hybridization (aCGH) data. The algorithm uses an iterative procedure that effectively eliminates the influence of imbalanced copy numbers. This leads to a more reliable assessment of copy number alterations (CNAs).

Bart PP van Houte

CGHnormaliter

Normalization of array CGH data with imbalanced aberrations.

CGHnormaliter-package function

CGHnormaliter is an iterative algorithm for normalization of aCGH data displaying imbalanced aberrations. First, provisory balanced copy numbers are identified and subsequently used for normalization based on LOWESS. These two steps are then iterated to refine the normalization. The assumption here is that the temporary exclusion of aberrations allows for a more appropriate calculation of the LOWESS regression curve. As a result, after normalization, the log2 intensity ratios of the normals will generally be closer to zero and better reflect the biological reality.

This package implements the CGHnormaliter algorithm which is a strategy for improved normalization of array Comparative Genomic Hybridization (aCGH) data

CGHnormaliter-package: This package implements the CGHnormaliter algorithm which is a strategy for improved normalization of array Comparative Genomic Hybridization (aCGH) data

Description

Arguments

Details

References

See Also