CGHnormaliter: a Bioconductor package for normalization of array CGH data with many CNAs.
CONCLUSIONS
CGHnormaliter is a package for normalization of array comparative genomic hybridization (aCGH) data. It 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). CGHnormaliter is integrated in the Bioconductor environment allowing a smooth link to visualization tools and further data analysis.


METHODS
The CGHnormaliter package is implemented in R and under GPL 3.0 license available at Bioconductor: http://www.bioconductor.org


BACKGROUND
heringa@few.vu.nl
van Houte
Bart P P
BP
Centre for Integrative Bioinformatics VU, VU University Amsterdam, De Boelelaan 1081A, 1081 HV Amsterdam, The Netherlands.
Binsl
Thomas W
TW
Hettling
Hannes
H
Heringa
Jaap
J
D055028:Comparative Genomic Hybridization / Q000379:methods*; D030541:Databases, Genetic; D020869:Gene Expression Profiling; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods*; D012984:Software