LPEadj

DOI: 10.18129/B9.bioc.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: Release (3.16)

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>

Installation

To install this package, start R (version "4.2") and enter:

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

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")

 

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

Details

biocViews	Microarray, Proteomics, Software
Version	1.58.0
In Bioconductor since	BioC 2.3 (R-2.8) (14.5 years)
License	LGPL
Depends	LPE
Imports	LPE, stats
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Package Archives

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

Source Package	LPEadj_1.58.0.tar.gz
Windows Binary	LPEadj_1.58.0.zip
macOS Binary (x86_64)	LPEadj_1.58.0.tgz
macOS Binary (arm64)	LPEadj_1.58.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/LPEadj
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/LPEadj
Bioc Package Browser	https://code.bioconductor.org/browse/LPEadj/
Package Short Url	https://bioconductor.org/packages/LPEadj/
Package Downloads Report	Download Stats