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

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

Author
Koki Tsuyuzaki, Itoshi Nikaido
Date of publication
None
Maintainer
Koki Tsuyuzaki <k.t.the-answer@hotmail.co.jp>
License
Artistic-2.0
Version
1.14.0

View on Bioconductor

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

Files in this package

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