MBttest: Multiple Beta t-Tests
Version 1.4.0

MBttest method was developed from beta t-test method of Baggerly et al(2003). Compared to baySeq (Hard castle and Kelly 2010), DESeq (Anders and Huber 2010) and exact test (Robinson and Smyth 2007, 2008) and the GLM of McCarthy et al(2012), MBttest is of high work efficiency,that is, it has high power, high conservativeness of FDR estimation and high stability. MBttest is suit- able to transcriptomic data, tag data, SAGE data (count data) from small samples or a few replicate libraries. It can be used to identify genes, mRNA isoforms or tags differentially expressed between two conditions.

AuthorYuan-De Tan
Bioconductor views AlternativeSplicing Coverage DifferentialExpression DifferentialSplicing GeneExpression MultipleComparison SAGE Sequencing Transcription
Date of publicationNone
MaintainerYuan-De Tan <tanyuande@gmail.com>
LicenseGPL-3
Version1.4.0
Package repositoryView on Bioconductor
InstallationInstall the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("MBttest")

Getting started

Package overview

Popular man pages

betaparametab: Estimation of Beta Parameters a And b
betattest: Beta t-test
maplot: MA plot of t-values Against Log Mean
mbetattest: Performance of multiple beta t-test on simulated data
pratio: Calculation of Psi
simulat: Simulation Data
smbetattest: Performance of multiple Beta t-test on simulated data
See all...

All man pages Function index File listing

Man pages

betaparametab: Estimation of Beta Parameters a And b
betaparametVP: Estimation of Binomal Parameters V And P in Count Data of RNA...
betaparametw: Estimation of Weights of Proportions
betattest: Beta t-test
dat: The Transcriptomic data and t-test results.
jkttcell: Jurkat T-cell Transcritomic Data
maplot: MA plot of t-values Against Log Mean
mbetattest: Performance of multiple beta t-test on simulated data
MBttest-package: Multiple Beta t-tests
mtprocedure: Multiple-Test Procedures
mtpvadjust: P-value Adjustment for Multiple Comparisons
myheatmap: Heatmap
oddratio: Calculation of Zeta
pratio: Calculation of Psi
simulat: Simulation Data
skjt: Simulated Null Transcriptomic data
smbetattest: Performance of multiple Beta t-test on simulated data

Functions

betaparametVP Man page Source code
betaparametab Man page Source code
betaparametw Man page Source code
betattest Man page Source code
dat Man page
jkttcell Man page
mBetatest Man page
mBetatest-package Man page
maplot Man page Source code
mbetattest Man page Source code
mtprocedure Man page Source code
mtpvadjust Man page Source code
myheatmap Man page Source code
oddratio Man page Source code
pratio Man page Source code
simulat Man page Source code
skjt Man page
smbetattest Man page Source code

Files

DESCRIPTION
NAMESPACE
NEWS
R
R/betaparametVP.R
R/betaparametab.R
R/betaparametw.R
R/betattest.R
R/maplot.R
R/mbetattest.R
R/mtprocedure.R
R/mtpvadjust.R
R/myheatmap.R
R/oddratio.R
R/pratio.R
R/simulat.R
R/smbetattest.R
build
build/vignette.rds
data
data/dat.rda
data/datalist
data/jkttcell.rda
data/skjt.rda
inst
inst/doc
inst/doc/MBttest.R
inst/doc/MBttest.Rnw
inst/doc/MBttest.pdf
man
man/MBttest-package.Rd
man/betaparametVP.Rd
man/betaparametab.Rd
man/betaparametw.Rd
man/betattest.Rd
man/dat.Rd
man/jkttcell.Rd
man/maplot.Rd
man/mbetattest.Rd
man/mtprocedure.Rd
man/mtpvadjust.Rd
man/myheatmap.Rd
man/oddratio.Rd
man/pratio.Rd
man/simulat.Rd
man/skjt.Rd
man/smbetattest.Rd
vignettes
vignettes/Figure1.png
vignettes/Figure2.png
vignettes/Figure3.png
vignettes/MBttest.Rnw
MBttest documentation built on May 20, 2017, 10:52 p.m.

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