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LPEadj

This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.

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

A correction of the local pooled error (LPE) method to replace the asymptotic variance adjustment with an unbiased adjustment based on sample size.

Bioconductor version: Development (3.18)

Two options are added to the LPE algorithm. The original LPE method sets all variances below the max variance in the ordered distribution of variances to the maximum variance. in LPEadj this option is turned off by default. The second option is to use a variance adjustment based on sample size rather than pi/2. By default the LPEadj uses the sample size based variance adjustment.

Author: Carl Murie <carl.murie at mcgill.ca>, Robert Nadon <robert.nadon at mcgill.ca>

Maintainer: Carl Murie <carl.murie at mcgill.ca>

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

Installation

To install this package, start R (version "4.3") and enter: 

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("LPEadj")

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

Documentation

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

browseVignettes("LPEadj")
LPEadj test for microarray data with small number of replicates PDF R Script
Reference Manual PDF

Details

biocViews Microarray, Proteomics, Software
Version 1.61.1
In Bioconductor since BioC 2.3 (R-2.8) (15 years)
License LGPL
Depends LPE
Imports LPE, stats
Linking To
Suggests
System Requirements
Enhances
URL
See More
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package LPEadj_1.61.1.tar.gz
Windows Binary LPEadj_1.61.1.zip
macOS Binary (x86_64) LPEadj_1.61.1.tgz
macOS Binary (arm64) LPEadj_1.61.1.tgz
Source Repository git clone https://git.bioconductor.org/packages/LPEadj
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/LPEadj
Package Short Url https://bioconductor.org/packages/LPEadj/
Package Downloads Report Download Stats