Files in nem
(Dynamic) Nested Effects Models and Deterministic Effects Propagation Networks to reconstruct phenotypic hierarchies
DESCRIPTION
NAMESPACE
inst/doc/markowetz-thesis-2006.pdf
inst/doc/references.bib
inst/doc/nem.Rnw
inst/doc/nem.R
inst/doc/nem.pdf
inst/doc/ModuleNetworks1.png
vignettes/markowetz-thesis-2006.pdf
vignettes/references.bib
vignettes/nem.Rnw
vignettes/ModuleNetworks1.png
R/transitive.reduction.R
R/dynoNEM_MCMC.R
R/nem.bootstrap.R
R/transitive.projections.R
R/zzz.R
R/nem.BN.R
R/nem.cont.preprocess.R
R/nem.consensus.R
R/plotnem.R
R/plotEffects.R
R/nem.jackknife.R
R/transitive.closure.R
R/subsets.R
R/BN.R
R/nem.discretize.R
R/SCCgraph.R
R/FULLBayesPrior.R
R/pairwise.posterior.R
R/moduleNetwork.orig.R
R/mLL.R
R/runMCMC.r
R/nem.greedyMAP.R
R/generateNetwork.R
R/updateHidden.r
R/nem.R
R/closest.transitive.greedy.R
R/DEPN.R
R/moduleNetwork.R
R/getDensityMatrix.R
R/selectEGenes.R
R/nem.calcSignificance.R
R/plot.nem.R
R/FULLmLL.R
R/nemModelSelection.R
R/print.nem.R
R/mcmc.r
R/quicknem.R
R/sim.intervention.R
R/BFSlevel.R
R/infer.edge.type.R
R/triples.posterior.R
R/score.R
R/nem.greedy.R
R/bum.R
R/EMalgo.r
R/onestep_mcmc.r
R/enumerate.models.R
R/local.model.prior.R
R/prune.graph.R
R/network.AIC.R
R/nem.featureselection.R
R/additionalFunctions.r
src/wrapper.c
src/netlearn.c
src/MCMC.c
src/netlearn.h
man/nem.discretize.Rd
man/nem.Rd
man/BFSlevel.Rd
man/prune.graph.Rd
man/subsets.Rd
man/BoutrosRNAi2002.Rd
man/generateNetwork.Rd
man/enumerate.models.Rd
man/closest.transitive.greedy.Rd
man/internal.Rd
man/SahinRNAi2008.Rd
man/plotEffects.Rd
man/transitive.closure.Rd
man/local.model.prior.Rd
man/nem.jackknife.Rd
man/network.AIC.Rd
man/selectEGenes.Rd
man/transitive.reduction.Rd
man/nem.consensus.Rd
man/set.default.parameters.Rd
man/getDensityMatrix.Rd
man/SCCgraph.Rd
man/NiederbergerMediator2012.Rd
man/quicknem.Rd
man/nemModelSelection.Rd
man/nem.bootstrap.Rd
man/sim.intervention.Rd
man/nem.cont.preprocess.Rd
man/Ivanova2006RNAiTimeSeries.Rd
man/prior.EgeneAttach.EB.Rd
man/transitive.projections.Rd
man/infer.edge.type.Rd
man/nem.calcSignificance.Rd
man/plot.nem.Rd
build/vignette.rds
data/SahinRNAi2008.RData
data/BoutrosRNAi2002.RData
data/Ivanova2006RNAiTimeSeries.RData
data/datalist
data/NiederbergerMediator2012.RData
