fdrame: FDR adjustments of Microarray Experiments (FDR-AME)

This package contains two main functions. The first is fdr.ma which takes normalized expression data array, experimental design and computes adjusted p-values It returns the fdr adjusted p-values and plots, according to the methods described in (Reiner, Yekutieli and Benjamini 2002). The second, is fdr.gui() which creates a simple graphic user interface to access fdr.ma

Install the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("fdrame")
AuthorYoav Benjamini, Effi Kenigsberg, Anat Reiner, Daniel Yekutieli
Bioconductor views DifferentialExpression Microarray MultipleComparison
Date of publicationNone
MaintainerEffi Kenigsberg <effiken.fdrame@gmail.com>
LicenseGPL (>= 2)
Version1.48.0

View on Bioconductor

Functions

compute.f.statistic Man page
compute.resampling.stat Man page
compute.statistic Man page
compute.statistic Man page
compute.t.statistic Man page
compute.t.statistic Man page
design Man page
exp.arr Man page
fdr.adaptive.c Man page
fdr.adaptive.c.resampling Man page
fdr.basic.comp Man page
fdr.bh Man page
fdr.error Man page
fdr.gui Man page
fdr.ma Man page
fdr.plot Man page
fdr.pt Man page
fdr.q Man page
fdr.qu Man page
gene.expression.normalization Man page
get.resampling.statistic.array Man page
OnBrowseDesign Man page
OnBrowseInput Man page
OnBrowseOutput Man page
OnCancel Man page
OnCbfa1 Man page
OnCbfa2 Man page
OnCbfa3 Man page
OnCbfa4 Man page
OnCompute Man page
OnHelp Man page
OnOK Man page
OnRbfa1 Man page
OnRbfa2 Man page
OnRbfa3 Man page
OnRbfa4 Man page
OnRbpm1 Man page
OnRbpm2 Man page
read.matrix Man page

Files

DESCRIPTION
NAMESPACE
R
R/fdr.R R/fdrgui.R
build
build/vignette.rds
data
data/design.rda
data/exp.arr.rda
inst
inst/doc
inst/doc/fdrame.Rnw
inst/doc/fdrame.pdf
man
man/design.Rd man/exp.arr.Rd man/fdr-internal.Rd man/fdrgui.Rd man/fdrma.Rd
src
src/fdr.c
vignettes
vignettes/fdrame.Rnw
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