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

Bioconductor version: 2.9

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>

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


biocViews Microarray, Bioinformatics, DifferentialExpression
Imports stats
System Requirements
License LGPL
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
Version 1.28.0
Since Bioconductor 1.6 (R-2.1) or earlier

Package Downloads

Package Source LPE_1.28.0.tar.gz
Windows Binary LPE_1.28.0.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary LPE_1.28.0.tgz
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