Package
|
Maintainer
|
Title
|
affy
|
Rafael A. Irizarry
|
Methods for Affymetrix Oligonucleotide Arrays
|
affycomp
|
Rafael A. Irizarry
|
Graphics Toolbox for Assessment of Affymetrix Expression
Measures
|
affycoretools
|
James W. MacDonald
|
Functions useful for those doing repetitive analyses with
Affymetrix GeneChips.
|
affydata
|
Laurent
|
Affymetrix Data for Demonstration Purpose
|
affylmGUI
|
Keith Satterley
|
GUI for affy analysis using limma package
|
affypdnn
|
Laurent
|
Probe Dependent Nearest Neighbours (PDNN) for the affy package
|
affyPLM
|
Ben Bolstad
|
Methods for fitting probe-level models
|
affyQCReport
|
Craig Parman
|
QC Report Generation for affyBatch objects
|
altcdfenvs
|
Laurent Gautier
|
alternative cdfenvs
|
annaffy
|
Colin A. Smith
|
Annotation tools for Affymetrix biological metadata
|
applera
|
Francesca Cordero
|
applera
|
beadarray
|
Mark Dunning
|
Quality control and low-level analysis of BeadArrays
|
bridge
|
Raphael Gottardo
|
Bayesian Robust Inference for Differential Gene Expression
|
codelink
|
Diego Díez
|
Manipulation of Codelink Bioarrays data.
|
copa
|
James W. MacDonald
|
Functions to perform cancer outlier profile analysis.
|
gcrma
|
Z. Wu
|
Background Adjustment Using Sequence Information
|
GEOquery
|
Sean Davis
|
Get data from NCBI Gene Expression Omnibus (GEO)
|
gff3Plotter
|
Oleg Sklyar
|
Plotting Data of Experiments on the Genomic Layout
|
GlobalAncova
|
R. Meister
|
Calculates a global test for differential gene expression
between groups
|
globaltest
|
Jelle Goeman
|
Testing Association of Groups of Genes with a Clinical Variable
|
limma
|
Gordon Smyth
|
Linear Models for Microarray Data
|
maDB
|
Johannes Rainer
|
Microarray database and utility functions for microarray data
analysis.
|
makecdfenv
|
James W. MacDonald
|
CDF Environment Maker
|
mmgmos
|
Xuejun Liu
|
multi-chip modified gamma Model of Oligonucleotide Signal
|
panp
|
Peter Warren
|
Presence-Absence Calls from Negative Strand Matching Probesets
|
plier
|
Crispin Miller
|
Implements the Affymetrix PLIER algorithm
|
RLMM
|
Nusrat Rabbee
|
A Genotype Calling Algorithm for Affymetrix SNP Arrays
|
simpleaffy
|
Crispin Miller
|
Very simple high level analysis of Affymetrix data
|
tilingArray
|
W. Huber
|
Analysis of high-density oligonucleotide tiling arrays
|
vsn
|
Wolfgang Huber
|
Variance stabilization and calibration for microarray data
|
webbioc
|
Colin A. Smith
|
Bioconductor Web Interface
|