| Package | Maintainer | Title |
|---|---|---|
| beadarraySNP | Jan Oosting | Normalization and reporting of Illumina SNP bead arrays |
| BSgenome | H. Pages | Infrastructure for Biostrings-based genome data packages |
| CGEN | William Wheeler | An R package for analysis of case-control studies in genetic epidemiology |
| chopsticks | Hin-Tak Leung | The snp.matrix and X.snp.matrix classes |
| crlmm | Benilton S Carvalho , Robert Scharpf , Matt Ritchie | Genotype Calling (CRLMM) and Copy Number Analysis tool for Affymetrix SNP 5.0 and 6.0 and Illumina arrays. |
| GeneRegionScan | Lasse Folkersen | GeneRegionScan |
| GGBase | Vince Carey | infrastructure for genetics of gene expression (c) 2008 VJ Carey |
| GGtools | Vince Carey | software and data for genetics of gene expression (c) 2006 VJ Carey |
| logicFS | Holger Schwender | Identification of SNP Interactions |
| MassArray | Reid F. Thompson | Analytical Tools for MassArray Data |
| mBPCR | P.M.V. Rancoita | Bayesian Piecewise Constant Regression for DNA copy number estimation |
| oligo | Benilton Carvalho | Preprocessing tools for oligonucleotide arrays. |
| RLMM | Nusrat Rabbee | A Genotype Calling Algorithm for Affymetrix SNP Arrays |
| siggenes | Holger Schwender | Multiple testing using SAM and Efron's empirical Bayes approaches |
| snpAssoc | David Clayton | Enhanced SnpMatrix and XSnpMatrix classes |
| SNPchip | Robert Scharpf | Classes and Methods for high throughput SNP chip data |
| snpMatrix | David Clayton | The snp.matrix and X.snp.matrix classes |
| snpStats | David Clayton | SnpMatrix and XSnpMatrix classes and methods |
| VanillaICE | Robert Scharpf | A Hidden Markov Model for high throughput genotyping arrays |