| Package | Maintainer | Title |
|---|---|---|
| aroma.light | Henrik Bengtsson | Light-weight methods for normalization and visualization of microarray data using only basic R data types |
| ArrayExpress | Audrey Kauffmann | Access the ArrayExpress Microarray Database at EBI and build Bioconductor data structures: ExpressionSet, AffyBatch, NChannelSet |
| arrayQuality | Agnes Paquet | Assessing array quality on spotted arrays |
| arrayQualityMetrics | Audrey Kauffmann | Quality metrics on microarray data sets |
| beadarraySNP | Jan Oosting | Normalization and reporting of Illumina SNP bead arrays |
| bridge | Raphael Gottardo | Bayesian Robust Inference for Differential Gene Expression |
| CALIB | Hui Zhao | Calibration model for estimating absolute expression levels from microarray data |
| convert | Yee Hwa (Jean) Yang | Convert Microarray Data Objects |
| copa | James W. MacDonald | Functions to perform cancer outlier profile analysis. |
| daMA | Jobst Landgrebe | Efficient design and analysis of factorial two-colour microarray data |
| dyebias | Philip Lijnzaad | The GASSCO method for correcting for slide-dependent gene-specific dye bias |
| gage | Weijun Luo | Generally Applicable Gene-set Enrichment for Pathway Analysis |
| genArise | IFC Development Team | Microarray Analysis tool |
| GEOquery | Sean Davis | Get data from NCBI Gene Expression Omnibus (GEO) |
| HELP | Reid F. Thompson | Tools for HELP data analysis |
| limma | Gordon Smyth | Linear Models for Microarray Data |
| limmaGUI | Keith Satterley | GUI for limma package |
| lumi | Pan Du | BeadArray Specific Methods for Illumina Methylation and Expression Microarrays |
| maDB | Johannes Rainer | Microarray database and utility functions for microarray data analysis. |
| maigesPack | Gustavo H. Esteves | Functions to handle cDNA microarray data, including several methods of data analysis |
| makePlatformDesign | Benilton Carvalho | Platform Design Package |
| MANOR | Pierre Neuvial | CGH Micro-Array NORmalization |
| marray | Yee Hwa (Jean) Yang | Exploratory analysis for two-color spotted microarray data |
| methylumi | Sean Davis | Handle Illumina methylation data |
| nnNorm | Adi Laurentiu Tarca | Spatial and intensity based normalization of cDNA microarray data based on robust neural nets |
| nudge | N. Dean | Normal Uniform Differential Gene Expression detection |
| oligo | Benilton Carvalho | Preprocessing tools for oligonucleotide arrays. |
| OLIN | Matthias Futschik | Optimized local intensity-dependent normalisation of two-color microarrays |
| OLINgui | Matthias Futschik | Graphical user interface for OLIN |
| plw | Magnus Astrand | Probe level Locally moderated Weighted t-tests. |
| rama | Raphael Gottardo | Robust Analysis of MicroArrays |
| Ringo | J. Toedling | R Investigation of ChIP-chip Oligoarrays |
| RTools4TB | Aurelie Bergon | Data mining of public microarray data through connections to the TranscriptomeBrowser database. |
| 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. |
| spotSegmentation | Chris Fraley | Microarray Spot Segmentation and Gridding for Blocks of Microarray Spots |
| stepNorm | Yuanyuan Xiao | Stepwise normalization functions for cDNA microarrays |
| vsn | Wolfgang Huber | Variance stabilization and calibration for microarray data |