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This is the development version of LPE; for the stable release version, see LPE.

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

Bioconductor version: Development (3.20)

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>, Michael O'Connell <michaelo at>, Jae K. Lee <jaeklee at>. Includes R source code contributed by HyungJun Cho <hcho at>

Maintainer: Nitin Jain <emailnitinjain at>

Citation (from within R, enter citation("LPE")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))

# The following initializes usage of Bioc devel


For older versions of R, please refer to the appropriate Bioconductor release.


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

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


biocViews DifferentialExpression, Microarray, Software
Version 1.79.0
In Bioconductor since BioC 1.6 (R-2.1) or earlier (> 19 years)
License LGPL
Depends R (>= 2.10)
Imports stats
System Requirements
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Depends On Me PLPE
Imports Me
Suggests Me ABarray
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Follow Installation instructions to use this package in your R session.

Source Package LPE_1.79.0.tar.gz
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macOS Binary (x86_64) LPE_1.79.0.tgz
macOS Binary (arm64) LPE_1.79.0.tgz
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