Files in MartinFXP/B-NEM
training of logical models from indirect measurements of perturbation experiments

.Rbuildignore
.gitignore
DESCRIPTION
NAMESPACE
R/BCR/0.source.the.data.R R/BCR/1.limma.R R/BCR/3.signaling.R R/BCR/4.simulation.nodes.R R/BCR/4.simulation.nodes.cyclic.R R/BCR/4.simulation.prior.R R/BCR/4.simulation.prior.cyclic.R R/absorption.R R/absorptionII.R R/addEdge.R R/addSignal.R R/adj2dnf.R R/adj2graph.R R/bnem.R R/checkCNOlist.R R/checkMethod.R R/checkNEMlist.R R/computeFc.R R/computeFcII.R R/computeScoreNemT1.R R/computeSm.R R/convertGraph.R
R/data.R
R/deleteEdge.R R/deleteSignal.R R/disc.R R/dnf2adj.R R/drawLocal.R R/drawScores.R R/dummyCNOlist.R R/epiNEM2Bg.R R/exSearch.R R/expNorm.R R/expandNEM.R R/exportVars.R R/findResiduals.R R/gaBinaryNemT1.R R/getHierarchy.R R/getNemFit.R R/graph2adj.R R/heatmapOP.R R/isDag.R R/kmeansNorm.R R/localSearch.R R/makeDesign.R R/makeDesignFull.R R/method/BP.R R/method/absorption.R R/method/addDumpnodes.R R/method/addEdge.R R/method/addSignal.R R/method/adj2dnf.R R/method/checkCNOlist.R R/method/checkMethod.R R/method/checkNEMlist.R R/method/cnoFromData.R R/method/cnopt.mod.R R/method/complement.R R/method/compressDnf.R R/method/computeFc.R R/method/computeFcAsp.R R/method/computeFcDisc.R R/method/computeFcII.R R/method/computeFcII2.R R/method/computeFcIII.R R/method/computeScoreNemT1.R R/method/computeSm.R R/method/convertGraph.R R/method/crossTalk.R R/method/dataPKN.R R/method/dataRed.R R/method/deleteEdge.R R/method/deleteSignal.R R/method/dnf2adj.R R/method/drawLocal.R R/method/drawScores.R R/method/dummyCNOlist.R R/method/egeneSel.R R/method/exSearch.R R/method/expandNEM.R R/method/exportVars.R R/method/gaBinaryNemT1.R R/method/gaRecon.R
R/method/getEffectFromTime.R
R/method/getHierarchy.R R/method/getNemFit.R
R/method/gibbsSamp.R
R/method/hbNEM.R R/method/heatmapOP.R R/method/heatmapRaw.R R/method/isDag.R R/method/localSearch.R R/method/makeDesign.R R/method/makeDesign2.R R/method/makeDesignFull.R R/method/makeGraphMat.R R/method/makeSif.R R/method/mc.R R/method/myGsea.R R/method/netExp.R R/method/norm.R R/method/optScore.R R/method/partitionGraph.R R/method/plotBinary.R R/method/plotDnf.R R/method/preClingo.R R/method/preproData.R R/method/rSimulatorT1.R R/method/randomDnf.R R/method/reduceGraph.R R/method/removeCycles.R R/method/resBNEM.R R/method/residualErrorNem.R R/method/resolveTrue.R R/method/sbnem.R R/method/simAnn.R R/method/simulateDnf.R R/method/simulateStates.R R/method/simulateStatesDAG.R R/method/simulateStatesRecursive.R R/method/simulateStatesRecursiveAdd.R R/method/simulateStatesRecursiveBest.R R/method/simulateStatesRecursiveII.R R/method/simulateStatesRecursiveIII.R R/method/simulateStatesRecursiveLoops.R R/method/smoothMatrix.R R/method/snem.R R/method/transClose.R R/method/transRed.R R/method/triples.R R/method/validateGraph.R R/myGsea.R R/pamNorm.R R/plotDnf.R R/preprocessInput.R R/randomDnf.R R/reduceGraph.R R/removeCycles.R R/simpleNorm.R R/simulateDnf.R R/simulateStatesRecursive.R R/simulateStatesRecursiveAdd.R R/smoothMatrix.R R/timeseries/dummy.R R/transClose.R R/transRed.R R/tutorial/analysis_pipeline.R R/tutorial/dummy.R R/tutorial/toy_example.R R/validateGraph.R README.md
data/bcr.rda
data/bnem_data.rda
inst/CITATION
inst/NEWS
man/absorption.Rd man/absorptionII.Rd man/bnem.Rd man/computeFc.Rd man/convertGraph.Rd man/dummyCNOlist.Rd man/epiNEM2Bg.Rd man/findResiduals.Rd man/heatmapOP.Rd man/plotDnf.Rd man/randomDnf.Rd man/reduceGraph.Rd man/simulateStatesRecursive.Rd man/transClose.Rd man/transRed.Rd man/validateGraph.Rd vignettes/bnem.Rmd
MartinFXP/B-NEM documentation built on June 24, 2017, 2:34 a.m.