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

LPE

Methods for analyzing microarray data using Local Pooled Error (LPE) method

Bioconductor version: 2.13

This LPE library is used to do significance analysis of microarray data with small number of replicates. It uses resampling based FDR adjustment, and gives less conservative results than traditional 'BH' or 'BY' procedures. Data accepted is raw data in txt format from MAS4, MAS5 or dChip. Data can also be supplied after normalization. LPE library is primarily used for analyzing data between two conditions. To use it for paired data, see LPEP library. For using LPE in multiple conditions, use HEM library.

Author: Nitin Jain <emailnitinjain at gmail.com>, Michael O'Connell <michaelo at warath.com>, Jae K. Lee <jaeklee at virginia.edu>. Includes R source code contributed by HyungJun Cho <hcho at virginia.edu>

Maintainer: Nitin Jain <emailnitinjain at gmail.com>

Installation

To install this package, start R and enter:

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

Documentation

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

browseVignettes("LPE")

 

PDF	R Script	LPE test for microarray data with small number of replicates
PDF		Reference Manual
Text		NEWS

Details

biocViews	Bioinformatics, DifferentialExpression, Microarray, Software
Version	1.36.0
In Bioconductor since	BioC 1.6 (R-2.1) or earlier
License	LGPL
Depends	R (>= 2.10)
Imports	stats
Suggests
System Requirements
URL	http://www.r-project.org http://www.healthsystem.virginia.edu/internet/hes/biostat/bioinformatics/ http://sourceforge.net/projects/r-lpe/
Depends On Me	LPEadj, PLPE
Imports Me	LPEadj
Suggests Me	ABarray

Package Archives

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

Package Source	LPE_1.36.0.tar.gz
Windows Binary	LPE_1.36.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard)	LPE_1.36.0.tgz
Browse/checkout source	(username/password: readonly)
Package Downloads Report	Download Stats