| Package | Title | Version |
| aCGH | Classes and functions for Array Comparative Genomic Hybridization data. | 1.1.4 |
| affy | Methods for Affymetrix Oligonucleotide Arrays | 1.5.8-1 |
| affycomp | Graphics Toolbox for Assessment of Affymetrix Expression Measures | 1.4.3 |
| affydata | Affymetrix Data for Demonstration Purpose | 1.4.0 |
| affylmGUI | GUI for affy analysis using limma package | 1.2.5 |
| affypdnn | Probe Dependent Nearest Neighbours (PDNN) for the affy package | 1.1-0 |
| affyPLM | affyPLM - Probe Level Models | 1.2.5 |
| altcdfenvs | alternative cdfenvs | 1.1-8 |
| annaffy | Annotation tools for Affymetrix biological metadata | 1.0.11 |
| AnnBuilder | Bioconductor annotation data package builder | 1.4.21 |
| annotate | Annotation for microarrays | 1.5.1-1 |
| apComplex | Estimate protein complex membership using AP-MS protein data | 1.0.1 |
| arrayMagic | two-colour cDNA array quality control and preprocessing | 1.5.0 |
| arrayQuality | Assessing array quality on spotted arrays | 1.0.7 |
| bim | Bayesian Interval Mapping Diagnostics | 1.01-1 |
| Biobase | Biobase: Base functions for Bioconductor | 1.5.0 |
| Biostrings | String objects reepresenting biological sequences | 1.0.0 |
| ChromoViz | Multimodal visualization of gene expression | 1.0 |
| convert | Convert Microarray Data Objects | 1.1.9 |
| ctc | Cluster and Tree Conversion. | 1.2.7 |
| daMA | Efficient design and analysis of factorial two-colour microarray data | 1.0.1 |
| DEDS | Differential Expression via Distance Summary for Microarray Data | 1.0.3 |
| DNAcopy | DNA copy number data analysis | 1.1.0 |
| DynDoc | Dynamic document tools | 1.5.0 |
| EBarrays | Empirical Bayes for Microarrays | 1.0-19 |
| ecolitk | Meta-data and tools for E. coli | 1.0-1 |
| edd | expression density diagnostics | 1.5.0 |
| exprExternal | Implementation of exprSet using externalVectors | 1.0.0 |
| externalVector | Vector objects for R with external storage | 1.0.14 |
| factDesign | Factorial designed microarray experiment analysis | 1.1.4 |
| gcrma | Background Adjustment Using Sequence Information | 1.1.3 |
| genArise | Microarray Analysis tool | 1.0.0 |
| genefilter | Genefilter: filter genes | 1.5.0 |
| geneplotter | Grapics related functions for Bioconductor | 1.5.2 |
| GeneSpring | GeneSpring R Integration Functions | 1.0.3 |
| GeneTraffic | GeneTraffic R Integration Functions | 1.0.6 |
| GeneTS | Genetic Time Series and Graphical Models | 2.3 |
| GLAD | Gain and Loss Analysis of DNA | 1.0.1 |
| globaltest | Testing Association of a Group of Genes with a Clinical Variable | 3.0.2 |
| goCluster | Analysis of clustering results in conjunction with annotation data. | 1.0.0 |
| GOstats | Tools for manipulating GO and microarrays. | 1.1.1 |
| goTools | Functions for Gene Ontology database | 1.0.3 |
| gpls | Classification using generalized partial least squares | 1.0.6 |
| graph | graph: A package to handle graph data structures | 1.5.1 |
| GraphAT | Graph Theoretic Association Tests | 1.0.0 |
| gtkWidgets | Widgets built using RGtk | 0.6.6 |
| HEM | Heterogeneous error model for analysis of microarray data | 1.0.4 |
| hexbin | Hexagonal Binning Routines ___OLD VERSION___ | 1.0.10 |
| hopach | Hierarchical Ordered Partitioning and Collapsing Hybrid (HOPACH) | 1.0 |
| Icens | NPMLE for Censored and Truncated Data | 1.0.0 |
| impute | impute: Imputation for microarray data | 1.0.2 |
| KEGGSOAP | Client-side SOAP access KEGG | 0.6.5 |
| limma | Linear Models for Microarray Data | 1.8.6 |
| limmaGUI | GUI for limma package | 1.3.6 |
| LPE | Methods for analyzing microarray data using Local Pooled Error (LPE) method | 1.1.5 |
| makecdfenv | CDF Environment Maker | 1.4.8 |
| marray | Exploratory analysis for two-color spotted microarray data | 1.5.25 |
| matchprobes | Tools for sequence matching of probes on arrays | 1.0.12 |
| MeasurementError.cor | Measurement Error model estimate for correlation coefficient | 1.0.2 |
| MergeMaid | Merge Maid | 2.0-1 |
| MLInterfaces | MLInterfaces | 1.0.0 |
| msbase | Basic classes and methods for mass spectrometric mass list manipulation. | 1.0.0 |
| multtest | Resampling-based multiple hypothesis testing | 1.5.2 |
| nnNorm | Spatial and intensity based normalization of cDNA microarray data based on robust neural nets | 1.0.1 |
| OLIN | Optimized local intensity-dependent normalisation of two-color microarrays | 1.3.2 |
| OLINgui | Graphical user interface for OLIN | 1.0.1 |
| pairseqsim | pairwise sequence alignment similarity simple. | 1.0.4 |
| pamr | Pam: prediction analysis for microarrays | 1.22 |
| pickgene | Adaptive Gene Picking for Microarray Expression Data Analysis | 1.0.0 |
| prada | Data analysis for cell-based assays | 1.1.9 |
| PROcess | Ciphergen SELDI-TOF Processing | 1.3.2 |
| qvalue | Q-value estimation for false discovery rate control | 1.1 |
| rama | Robust Analysis of MicroArrays | 1.0.1 |
| RBGL | Test interface to boost C++ graph lib | 1.3.7 |
| Rdbi | Generic database methods | 1.0.4 |
| reposTools | Repository tools for R | 1.5.2 |
| Resourcerer | Reads annotation data from TIGR Resourcerer or convert the annotation data into Bioconductor data pacakge. | 1.0.4 |
| RMAGEML | Handling MAGEML documents | 2.1.0 |
| ROC | utilities for ROC, with uarray focus | 1.0.13 |
| RSNPper | interface to chip.org::SNPper for SNP-related data | 1.0-2 |
| Ruuid | Ruuid: Provides Universally Unique ID values | 1.5.0 |
| SAGElyzer | A package that deals with SAGE libraries | 1.4.2 |
| siggenes | SAM and Efron's empirical Bayes approaches | 1.2.11 |
| simpleaffy | Very simple high level analysis of Affymetrix data | 2.10-1 |
| SNAData | Social Networks Analysis Data Examples | 1.1.0 |
| splicegear | splicegear | 1.0-8 |
| stam | Structured Analysis of Microarray Data | 1.0.3 |
| stepNorm | Stepwise normalization functions for cDNA microarrays | 1.0.2 |
| tkWidgets | R based tk widgets | 1.5.20 |
| vsn | Variance stabilization and calibration for microarray data | 1.5.0 |
| webbioc | Bioconductor Web Interface | 1.0.1 |
| widgetInvoke | Evaluation widgets for functions | 0.0.9 |
| widgetTools | Creates an interactive tcltk widget | 1.4.7 |