iBATCGH: Integrative Bayesian Analysis of Transcriptomic and CGH Data

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Bayesian integrative models of gene expression and comparative genomic hybridization data. The package provides inference on copy number variations and their association with gene expression.

Author
Alberto Cassese
Date of publication
2015-07-06 19:31:05
Maintainer
Alberto Cassese <alberto.cassese@maastrichtuniversity.nl>
License
GPL-2
Version
1.3
URLs

View on CRAN

Man pages

Center
Preprocessing - Center gene expression data
iBAT
Main - Mixture selection prior
iBATCGH-package
Integrative Bayesian Analysis of Transcriptomic and CGH data
iBATProbit
Main - Probit selection prior
Inference
Postprocessing - Posterior Inference
InferenceA
Postprocessing - Inference on the transition matrix
InferenceMu
Postprocessing - Inference on the vector of state specific...
InferenceR
Postprocessing - Inference on the association matrix
InferenceSd
Postprocessing - Inference on the vector of state specific sd
InferenceXi
Postprocessing - Inference on the latent states
InitMu
Preprocessing - Initialize state specific mean vector
InitXi
Preprocessing - Initialize matrix of latent states
NCI_60
NCI-60 cancer cell lines data
RListToVector
Internal function
Scenario1
Simulated data - Scenario 1
Scenario2
Simulated data - Scenario 2
TCGA_lung
TCGA lung squamous cell carcinoma data
Tran
Preprocessing - Tran

Files in this package

iBATCGH
iBATCGH/inst
iBATCGH/inst/include
iBATCGH/inst/include/pRMHXImixture.h
iBATCGH/inst/include/pRMHProbit.h
iBATCGH/inst/include/MHRmixture.h
iBATCGH/inst/include/pRMHXIProbit.h
iBATCGH/inst/include/MixtureMain.h
iBATCGH/inst/include/pRMHmixture.h
iBATCGH/inst/include/prMixture.h
iBATCGH/inst/include/MHXIProbit.h
iBATCGH/inst/include/iBATCGH.h
iBATCGH/inst/include/MHRProbit.h
iBATCGH/inst/include/iBATCGH_RcppExports.h
iBATCGH/inst/include/ProbitMain.h
iBATCGH/inst/include/MHXImixture.h
iBATCGH/src
iBATCGH/src/Tran.cpp
iBATCGH/src/Makevars
iBATCGH/src/dir.cpp
iBATCGH/src/prMHRProbit.cpp
iBATCGH/src/MHXImixture.cpp
iBATCGH/src/MixtureMain.cpp
iBATCGH/src/MHXIProbit.cpp
iBATCGH/src/prgmmixture.cpp
iBATCGH/src/prProbit.cpp
iBATCGH/src/prMHXImixture.cpp
iBATCGH/src/truncgamma.cpp
iBATCGH/src/prMHXIProbit.cpp
iBATCGH/src/prXImixture.cpp
iBATCGH/src/prRmixture.cpp
iBATCGH/src/initial.cpp
iBATCGH/src/prMHRmixture.cpp
iBATCGH/src/omegagamma.cpp
iBATCGH/src/Center.cpp
iBATCGH/src/MHRProbit.cpp
iBATCGH/src/MHRmixture.cpp
iBATCGH/src/truncnorm.cpp
iBATCGH/src/Makevars.win
iBATCGH/src/RcppExports.cpp
iBATCGH/src/RListToVector.cpp
iBATCGH/src/ldnwpi.cpp
iBATCGH/src/ProbitMain.cpp
iBATCGH/src/mml.cpp
iBATCGH/src/sm.cpp
iBATCGH/NAMESPACE
iBATCGH/data
iBATCGH/data/NCI_60.rda
iBATCGH/data/TCGA_lung.rda
iBATCGH/data/datalist
iBATCGH/R
iBATCGH/R/InitMu.R
iBATCGH/R/Inference.R
iBATCGH/R/InitXi.R
iBATCGH/R/InferenceA.R
iBATCGH/R/RcppExports.R
iBATCGH/R/InferenceMu.R
iBATCGH/R/InferenceXi.R
iBATCGH/R/InferenceSd.R
iBATCGH/R/Scenario1.R
iBATCGH/R/Scenario2.R
iBATCGH/R/InferenceR.R
iBATCGH/MD5
iBATCGH/DESCRIPTION
iBATCGH/man
iBATCGH/man/InitXi.Rd
iBATCGH/man/Inference.Rd
iBATCGH/man/InferenceSd.Rd
iBATCGH/man/iBATCGH-package.Rd
iBATCGH/man/RListToVector.Rd
iBATCGH/man/Tran.Rd
iBATCGH/man/InferenceR.Rd
iBATCGH/man/InitMu.Rd
iBATCGH/man/InferenceA.Rd
iBATCGH/man/Scenario1.Rd
iBATCGH/man/TCGA_lung.Rd
iBATCGH/man/Scenario2.Rd
iBATCGH/man/iBATProbit.Rd
iBATCGH/man/InferenceMu.Rd
iBATCGH/man/InferenceXi.Rd
iBATCGH/man/NCI_60.Rd
iBATCGH/man/iBAT.Rd
iBATCGH/man/Center.Rd