GRENITS: Gene Regulatory Network Inference Using Time Series

The package offers four network inference statistical models using Dynamic Bayesian Networks and Gibbs Variable Selection: a linear interaction model, two linear interaction models with added experimental noise (Gaussian and Student distributed) for the case where replicates are available and a non-linear interaction model.

AuthorEdward Morrissey
Date of publicationNone
MaintainerEdward Morrissey <edward.morrissey@gmail.com>
LicenseGPL (>= 2)
Version1.26.0

View on Bioconductor

Files in this package

GRENITS/DESCRIPTION
GRENITS/NAMESPACE
GRENITS/R
GRENITS/R/AR1_Error_functions.R GRENITS/R/AR1_Error_functions_student.R GRENITS/R/AR1_functions.R GRENITS/R/AnalyseOutput_MCMC.R GRENITS/R/Splines_functions.R GRENITS/R/convergenceAR1.R GRENITS/R/convergenceReps_gauss.R GRENITS/R/convergenceReps_student.R GRENITS/R/convergenceSplines.R GRENITS/R/defaultMCMC_params.R GRENITS/R/genericAnalysisFunctions.R GRENITS/R/plotPriors.R GRENITS/R/readChains.R
GRENITS/build
GRENITS/build/vignette.rds
GRENITS/data
GRENITS/data/Athaliana_ODE.txt
GRENITS/data/Athaliana_ODE_4NoiseReps.txt
GRENITS/inst
GRENITS/inst/NEWS
GRENITS/inst/doc
GRENITS/inst/doc/GRENITS_package.R
GRENITS/inst/doc/GRENITS_package.Rnw
GRENITS/inst/doc/GRENITS_package.pdf
GRENITS/man
GRENITS/man/LockeData.Rd GRENITS/man/LockeDataError.Rd GRENITS/man/analyse.output.Rd GRENITS/man/defaultParams_gauss.Rd GRENITS/man/defaultParams_linear.Rd GRENITS/man/defaultParams_nonLinear.Rd GRENITS/man/defaultParams_student.Rd GRENITS/man/function_LinearNet.Rd GRENITS/man/function_NonLinearNet.Rd GRENITS/man/function_ReplicatesNet_gauss.Rd GRENITS/man/function_ReplicatesNet_student.Rd GRENITS/man/plotPriors.Rd GRENITS/man/readChains.Rd
GRENITS/src
GRENITS/src/AR1_Gauss_biocond.cc
GRENITS/src/AR1_Gauss_biocond.h
GRENITS/src/AR1_Student_biocond.cc
GRENITS/src/AR1_Student_biocond.h
GRENITS/src/AR1_biocond.cc
GRENITS/src/AR1_biocond.h
GRENITS/src/Makevars
GRENITS/src/Makevars.win
GRENITS/src/PSplines_biocond.cc
GRENITS/src/PSplines_biocond.h
GRENITS/src/R_C_interface.cpp
GRENITS/src/ReadMCMCFiles.cpp
GRENITS/src/ReadMCMCFiles.h
GRENITS/src/commonFunctions.cc
GRENITS/src/commonFunctions.h
GRENITS/src/functionsErrorModel.cc
GRENITS/src/functionsErrorModel.h
GRENITS/src/matrixManipulationFunctions.cc
GRENITS/src/matrixManipulationFunctions.h
GRENITS/src/updateFunctions_AR1.cc
GRENITS/src/updateFunctions_AR1.h
GRENITS/src/updateFunctions_Splines.cc
GRENITS/src/updateFunctions_Splines.h
GRENITS/vignettes
GRENITS/vignettes/GRENITS_package.Rnw

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