
Hallo,

I just installed all needed packages for my project on my PC. But I cannot load all at one time. I now want to load limma. How can I realize the following plan: I want to install for example limma inclusive all needed other sub packages (add-on). Can anyone tell me the corresponding command? 

Thanks, Corinna


Here is the result of the command library():

 Pakete in Library 'D:/R/R-2.6.0/library':

ada                     Performs boosting algorithms for a binary
                        response
affy                    Methods for Affymetrix Oligonucleotide Arrays
affycomp                Graphics Toolbox for Assessment of Affymetrix
                        Expression Measures
affydata                Affymetrix Data for Demonstration Purpose
affyio                  Tools for parsing Affymetrix data files
affyPLM                 Methods for fitting probe-level models
affyQCReport            QC Report Generation for affyBatch objects
ALL                     A data package
annaffy                 Annotation tools for Affymetrix biological
                        metadata
annotate                Annotation for microarrays
AnnotationDbi           Annotation Database Interface
arules                  Mining Association Rules and Frequent Itemsets
base                    The R Base Package
Biobase                 Biobase: Base functions for Bioconductor
biomaRt                 Interface to BioMart databases (e.g. Ensembl,
                        Wormbase, Gramene and Uniprot)
Biostrings              String objects representing biological
                        sequences, and matching algorithms
boot                    Bootstrap R (S-Plus) Functions (Canty)
Category                Category Analysis
CCl4                    Carbon Tetrachloride (CCl4) treated hepatocytes
class                   Functions for Classification
cluster                 Cluster Analysis Extended Rousseeuw et al.
codetools               Code Analysis Tools for R
datasets                The R Datasets Package
DBI                     R Database Interface
DynDoc                  Dynamic document tools
e1071                   Misc Functions of the Department of Statistics
                        (e1071), TU Wien
edd                     expression density diagnostics
foreign                 Read Data Stored by Minitab, S, SAS, SPSS,
                        Stata, Systat, dBase, ...
gcrma                   Background Adjustment Using Sequence
                        Information
genefilter              genefilter: methods for filtering genes from
                        microarray experiments
geneplotter             Grapics related functions for Bioconductor
globaltest              Testing Association of Groups of Genes with a
                        Clinical Variable
GO                      A data package containing annotation data for
                        GO
GO.db                   A set of annotation maps describing the entire
                        Gene Ontology
golubEsets              exprSets for golub leukemia data
GOstats                 Tools for manipulating GO and microarrays.
graph                   graph: A package to handle graph data
                        structures
graphics                The R Graphics Package
grDevices               The R Graphics Devices and Support for Colours
                        and Fonts
grid                    The Grid Graphics Package
GSEABase                Gene set enrichment data structures and methods
hgu133a                 Affymetrix Human Genome U133 Set Annotation
                        Data (hgu133a)
hgu95av2                Affymetrix Human Genome U95 Set Annotation Data
                        (hgu95av2)
hgu95av2.db             Affymetrix Human Genome U95 Set annotation data
                        (chip hgu95av2)
hgu95av2cdf             hgu95av2cdf
KEGG                    A data package containing annotation data for
                        KEGG
keggorth                graph support for KO, KEGG Orthology
KernSmooth              Functions for kernel smoothing for Wand & Jones
                        (1995)
lattice                 Lattice Graphics
limma                   Linear Models for Microarray Data
makecdfenv              CDF Environment Maker
MAQCsubset              Experimental Data Package: MAQCsubset
marray                  Exploratory analysis for two-color spotted
                        microarray data
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                    GAMs with GCV smoothness estimation and GAMMs
                        by REML/PQL
MLInterfaces            Uniform interfaces to R machine learning
                        procedures for data in Bioconductor containers
multtest                Resampling-based multiple hypothesis testing
Neve2006                expression and CGH data on breast cancer cell
                        lines
nlme                    Linear and Nonlinear Mixed Effects Models
nnet                    Feed-forward Neural Networks and Multinomial
                        Log-Linear Models
pamr                    Pam: prediction analysis for microarrays
ppiData                 A package that contains the bait to prey
                        directed graphs for protein-protein
                        interactions.
preprocessCore          A collection of pre-processing functions
R.matlab                Read and write of MAT files together with
                        R-to-Matlab connectivity
R.oo                    R object-oriented programming with or without
                        references
randomForest            Breiman and Cutler's random forests for
                        classification and regression
RBGL                    Interface to boost C++ graph lib
RColorBrewer            ColorBrewer palettes
rcompgen                Completion generator for R
RCurl                   HTTP request interface
rda                     Shrunken Centroids Regularized Discriminant
                        Analysis
Rgraphviz               Provides plotting capabilities for R graph
                        objects
ROC                     utilities for ROC, with uarray focus
rpart                   Recursive Partitioning
RSQLite                 SQLite interface for R
siggenes                Multiple testing using SAM and Efron's
                        empirical Bayes approaches
simpleaffy              Very simple high level analysis of Affymetrix
                        data
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
survival                Survival analysis, including penalised
                        likelihood.
tcltk                   Tcl/Tk Interface
tkWidgets               R based tk widgets
tools                   Tools for Package Development
utils                   The R Utils Package
vsn                     Variance stabilization and calibration for
                        microarray data
widgetTools             Creates an interactive tcltk widget
XML                     Tools for parsing and generating XML within R
                        and S-Plus.
xtable                  Export tables to LaTeX or HTML
yeastExpData            Yeast Experimental Data


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