metaSeq: Meta-analysis of RNA-Seq count data in multiple studies
Version 1.16.0

The probabilities by one-sided NOISeq are combined by Fisher's method or Stouffer's method

AuthorKoki Tsuyuzaki, Itoshi Nikaido
Bioconductor views DifferentialExpression RNASeq Sequencing
Date of publicationNone
MaintainerKoki Tsuyuzaki <k.t.the-answer@hotmail.co.jp>
LicenseArtistic-2.0
Version1.16.0
Package repositoryView on Bioconductor
InstallationInstall the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("metaSeq")

Getting started

Package overview

Popular man pages

Accelerate.NOISeq: Accelerating NOISeq
BreastCancer: Multiple RNA-Seq count data designed as Breast Cancer cell...
meta.oneside.noiseq: One-sided NOISeq for meta-analysis
meta.readData: readData function for meta-analysis
pvals: P-values or probability calculated by DESeq, edgeR, baySeq,...
Stouffer.test: Stouffer's weighted Z-score method (Inverse normal method)
StudyA: Count data of SRP008746
See all...

All man pages Function index File listing

Man pages

Accelerate.NOISeq: Accelerating NOISeq
BreastCancer: Multiple RNA-Seq count data designed as Breast Cancer cell...
Fisher.test: Fisher's combined probability method
meta.oneside.noiseq: One-sided NOISeq for meta-analysis
meta.readData: readData function for meta-analysis
metaSeq-package: Meta-analysis of RNA-Seq count data in multiple studies
other.oneside.pvalues: Optional function for non-NOISeq method
pvals: P-values or probability calculated by DESeq, edgeR, baySeq,...
Reset.Accelerate.NOISeq: Reset Accelerate.NOISeq function
Result.Meta: Result of meta.oneside.noiseq against Brast Cancer data
Stouffer.test: Stouffer's weighted Z-score method (Inverse normal method)
StudyA: Count data of SRP008746
text.busca_unix: One of C++ re-implimated components in NOISeq
text.busca_win: One of C++ re-implimated components in NOISeq
text.n.menor_unix: One of C++ re-implimated components in NOISeq
text.n.menor_win: One of C++ re-implimated components in NOISeq

Functions

Accelerate.NOISeq Man page Source code
BreastCancer Man page
Fisher.test Man page Source code
Reset.Accelerate.NOISeq Man page Source code
Result.Meta Man page
Stouffer.test Man page Source code
StudyA Man page
custom.MD Source code
custom.probdeg Source code
each.Fisher.ignore.test Source code
each.Fisher.test Source code
each.Stouffer.ignore.test Source code
each.Stouffer.test Source code
meta.oneside.noiseq Man page Source code
meta.readData Man page Source code
metaSeq Man page
metaSeq-package Man page
oneside.noiseq Source code
original.MD Source code
original.busca Source code
original.n.menor Source code
original.probdeg Source code
other.oneside.pvalues Man page Source code
pvals Man page
text.busca_unix Man page
text.busca_win Man page
text.n.menor_unix Man page
text.n.menor_win Man page

Files

DESCRIPTION
NAMESPACE
R
R/Accelerate.NOISeq.R
R/Fisher.test.R
R/Reset.Accelerate.NOISeq.R
R/Stouffer.test.R
R/custom.MD.R
R/custom.probdeg.R
R/each.Fisher.ignore.test.R
R/each.Fisher.test.R
R/each.Stouffer.ignore.test.R
R/each.Stouffer.test.R
R/meta.oneside.noiseq.R
R/meta.readData.R
R/oneside.noiseq.R
R/original.MD.R
R/original.busca.R
R/original.n.menor.R
R/original.probdeg.R
R/other.oneside.pvalues.R
build
build/vignette.rds
data
data/BreastCancer.rda
data/Result.Meta.rda
data/StudyA.rda
data/datalist
data/pvals.rda
data/text.busca_unix.rda
data/text.busca_win.rda
data/text.n.menor_unix.rda
data/text.n.menor_win.rda
inst
inst/doc
inst/doc/Fig1.jpeg
inst/doc/Fig2.png
inst/doc/metaSeq.R
inst/doc/metaSeq.Rnw
inst/doc/metaSeq.pdf
inst/test_allmethods.R
man
man/Accelerate.NOISeq.Rd
man/BreastCancer.Rd
man/Fisher.test.Rd
man/Reset.Accelerate.NOISeq.Rd
man/Result.Meta.Rd
man/Stouffer.test.Rd
man/StudyA.Rd
man/meta.oneside.noiseq.Rd
man/meta.readData.Rd
man/metaSeq-package.Rd
man/other.oneside.pvalues.Rd
man/pvals.Rd
man/text.busca_unix.Rd
man/text.busca_win.Rd
man/text.n.menor_unix.Rd
man/text.n.menor_win.Rd
vignettes
vignettes/Fig1.jpeg
vignettes/Fig2.png
vignettes/metaSeq.Rnw
metaSeq documentation built on May 20, 2017, 9:53 p.m.

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