LPEadj: A correction of the local pooled error (LPE) method to replace the asymptotic variance adjustment with an unbiased adjustment based on sample size.
Version 1.36.0

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.

AuthorCarl Murie <carl.murie@mcgill.ca>, Robert Nadon <robert.nadon@mcgill.ca>
Bioconductor views Microarray Proteomics
Date of publicationNone
MaintainerCarl Murie <carl.murie@mcgill.ca>
LicenseLGPL
Version1.36.0
Package repositoryView on Bioconductor
InstallationInstall the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("LPEadj")

Popular man pages

adjBaseOlig.error: Evaluates LPE variance function of M for quantiles of A...
adjBaseOlig.error.step1: Evaluates LPE variance function of M for quantiles of A...
adjBaseOlig.error.step2: Evaluates LPE variance function of M for quantiles of A...
calculateLpeAdj: Evaluates local pooled error significance test with user...
lpeAdj: High level lpeAdj function that executes the adjusted local...
See all...

All man pages Function index File listing

Man pages

adjBaseOlig.error: Evaluates LPE variance function of M for quantiles of A...
adjBaseOlig.error.step1: Evaluates LPE variance function of M for quantiles of A...
adjBaseOlig.error.step2: Evaluates LPE variance function of M for quantiles of A...
calculateLpeAdj: Evaluates local pooled error significance test with user...
lpeAdj: High level lpeAdj function that executes the adjusted local...

Functions

adjBaseOlig.error Man page Source code
adjBaseOlig.error.step1 Man page Source code
adjBaseOlig.error.step2 Man page Source code
calculateLpeAdj Man page Source code
lpeAdj Man page Source code

Files

DESCRIPTION
NAMESPACE
R
R/LPEadj.R
build
build/vignette.rds
inst
inst/doc
inst/doc/LPEadj.R
inst/doc/LPEadj.Rnw
inst/doc/LPEadj.pdf
man
man/adjBaseOlig.error.Rd
man/adjBaseOlig.error.step1.Rd
man/adjBaseOlig.error.step2.Rd
man/calculateLpeAdj.Rd
man/lpeAdj.Rd
vignettes
vignettes/LPEadj.Rnw
vignettes/fig
vignettes/fig/FPRPvalHist10Reps4.EPS
vignettes/fig/FPRPvalHist10Reps4.jpg
vignettes/fig/HGU95GreyScale1.eps
vignettes/fig/HGU95GreyScale1.jpg
vignettes/fig/MeanMedianVar3.eps
vignettes/fig/MeanMedianVar3.jpg
vignettes/isorot.sty
LPEadj documentation built on May 20, 2017, 9:28 p.m.

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