| Package | Maintainer | Title |
|---|---|---|
| aCGH | Jane Fridlyand | Classes and functions for Array Comparative Genomic Hybridization data. |
| beadarraySNP | Jan Oosting | Normalization and reporting of Illumina SNP bead arrays |
| CGHbase | Sjoerd Vosse | CGHbase: Base functions and classes for arrayCGH data analysis. |
| CGHcall | Sjoerd Vosse | Calling aberrations for array CGH tumor profiles. |
| CGHregions | Sjoerd Vosse | Dimension Reduction for Array CGH Data with Minimal Information Loss. |
| DNAcopy | Venkatraman E. Seshan | DNA copy number data analysis |
| GLAD | Philippe Hupe | Gain and Loss Analysis of DNA |
| ITALICS | Guillem Rigaill | ITALICS |
| MANOR | Pierre Neuvial | CGH Micro-Array NORmalization |
| quantsmooth | Jan Oosting | Quantile smoothing and genomic visualization of array data |
| reb | Karl J. Dykema | Regional Expression Biases |
| SIM | Maarten van Iterson | Integrated Analysis of gene expression and copynumber data |
| SMAP | Robin Andersson | A Segmental Maximum A Posteriori Approach to Array-CGH Copy Number Profiling |
| snapCGH | John Marioni | Segmentation, normalisation and processing of aCGH data. |
| SNPchip | Robert Scharpf | Classes and Methods for high throughput SNP chip data |
| VanillaICE | Robert Scharpf | A Hidden Markov Model for high throughput genotyping arrays |