affy | Methods for Affymetrix Oligonucleotide Arrays |

affydata | Affymetrix Data for Demonstration Purpose |

affylmGUI | GUI for affy analysis using limma package |

affyPLM | affyPLM - Probe Level Models |

annaffy | Annotation tools for Affymetrix biological metadata |

annotate | Annotation for microarrays |

base | The R Base Package |

Biobase | Biobase: Base functions for Bioconductor |

boot | Bootstrap R (S-Plus) Functions (Canty) |

class | Functions for Classification |

cluster | Functions for clustering (by Rousseeuw et al.) |

convert | Convert Microarray Data Objects |

ctest | Defunct Package for Classical Tests |

DynDoc | Dynamic document tools |

eda | Defunct Package for Exploratory Data Analysis |

edd | expression density diagnostics |

fibroEset | exprSet for Karaman et al. (2003) fibroblasts data |

foreign | Read data stored by Minitab, S, SAS, SPSS, Stata, ... |

fxpy | FXPy Interface (Prototype) |

gcrma | Background Adjustment Using Sequence Information |

genefilter | Genefilter: filter genes |

geneplotter | Geneplotter: plot microarray data |

globaltest | Testing Association of a Group of Genes with a Clinical Variable |

GO | A data package containing annotation data for GO |

golubEsets | exprSets for golub leukemia data |

graphics | The R Graphics Package |

grid | The Grid Graphics Package |

hgu133a | A data package containing annotation data for hgu133a |

hgu133acdf | hgu133acdf |

hgu95av2 | A data package containing annotation data for hgu95av2 |

hgu95av2cdf | hgu95av2cdf |

hgu95av2probe | Probe sequence data for microarrays of type hgu95av2 |

hu6800 | A data package containing annotation data for hu6800 |

KEGG | A data package containing annotation data for KEGG |

KernSmooth | Functions for kernel smoothing for Wand & Jones (1995) |

lattice | Lattice Graphics |

limma | Linear Models for Microarray Data |

limmaGUI | GUI for limma package |

lqs | Resistant Regression and Covariance Estimation |

makecdfenv | CDF Environment Maker |

marray | Exploratory analysis for two-color spotted microarray data |

marrayClasses | Classes and methods for cDNA microarray data |

marrayInput | Data input for cDNA microarrays |

marrayNorm | Location and scale normalization for cDNA microarray data |

marrayPlots | Diagnostic plots for cDNA microarray data |

marrayTools | Miscellaneous functions for cDNA microarrays |

MASS | Main Package of Venables and Ripley's MASS |

matchprobes | Tools for sequence matching of probes on arrays |

Matrix | A Matrix package for R |

methods | Formal Methods and Classes |

mgcv | Multiple smoothing parameter estimation and GAMs by GCV |

mle | Defunct package for maximum likelihood estimation |

modreg | Defunct Package for Modern Regression: Smoothing and Local Methods |

multtest | Multiple Testing Procedures |

mva | Defunct Package for Classical Multivariate Analysis |

nlme | Linear and nonlinear mixed effects models |

nls | Defunct Package for Nonlinear Regression |

nnet | Feed-forward Neural Networks and Multinomial Log-Linear Models |

pamr | Pam: prediction analysis for microarrays |

R2HTML | HTML exportation for R objects |

reposTools | Repository tools for R |

ROC | utilities for ROC, with uarray focus |

rpart | Recursive Partitioning |

RSPython | Interface between Python and S language |

siggenes | Significance and Empirical Bayes Analyses of Microarrays |

sma | Statistical Microarray Analysis |

spatial | Functions for Kriging and Point Pattern Analysis |

splines | Regression Spline Functions and Classes |

statmod | Statistical Modeling |

stats | The R Stats Package |

stats4 | Statistical functions using S4 classes |

stepfun | Defunct Package for Step Functions, incl. Empirical Distributions |

survival | Survival analysis, including penalised likelihood. |

tcltk | Tcl/Tk Interface |

tkrplot | TK Rplot |

tkWidgets | R based tk widgets |

tools | Tools for Package Development |

ts | Defunct Package of Time Series Functions |

utils | The R Utils Package |

vsn | Variance stabilization and calibration for microarray data |

widgetTools | Creates an interactive tcltk widget |

wxPython | wxPython Interface (Unstable - evolving rapidly) |

XML | Tools for parsing and generating XML within R and S-Plus. |

xtable | Export tables to LaTeX or HTML |