source("http://bioconductor.org/biocLite.R")
biocLite("pcaMethods")

pcaMethods

A collection of PCA methods.

Bioconductor version: 2.13

Provides Bayesian PCA, Probabilistic PCA, Nipals PCA, Inverse Non-Linear PCA and the conventional SVD PCA. A cluster based method for missing value estimation is included for comparison. BPCA, PPCA and NipalsPCA may be used to perform PCA on incomplete data as well as for accurate missing value estimation. A set of methods for printing and plotting the results is also provided. All PCA methods make use of the same data structure (pcaRes) to provide a common interface to the PCA results. Initiated at the Max-Planck Institute for Molecular Plant Physiology, Golm, Germany.

Author: Wolfram Stacklies, Henning Redestig, Kevin Wright

Maintainer: Henning Redestig <henning.red at gmail.com>

Installation

To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("pcaMethods")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("pcaMethods")

 

PDF	R Script	Data with outliers
PDF	R Script	Introduction
PDF	R Script	Missing value imputation
PDF		Reference Manual
Text		NEWS

Details

biocViews	Bioinformatics, Software
Version	1.52.1
In Bioconductor since	BioC 1.9 (R-2.4)
License	GPL (>= 3)
Depends	Biobase, methods, Rcpp (>= 0.8.7)
Imports	BiocGenerics, MASS
Suggests	matrixStats, lattice
System Requirements	Rcpp
URL
Depends On Me	DeconRNASeq
Imports Me
Suggests Me

Package Archives

Follow Installation instructions to use this package in your R session.

Package Source	pcaMethods_1.52.1.tar.gz
Windows Binary	pcaMethods_1.52.1.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard)	pcaMethods_1.52.1.tgz
Browse/checkout source	(username/password: readonly)
Package Downloads Report	Download Stats