Files in CellNOptR
Training of boolean logic models of signalling networks using prior knowledge networks and perturbation data.

DESCRIPTION
.Rinstignore
NAMESPACE
data/DreamModel.RData
data/ToyModel.RData
data/CNOlistToy.RData
data/CNOlistToyMMB.RData
data/CNOlistToy2.RData
data/CNOlistDREAM.RData
data/ToyModel2.RData
vignettes/CellNOptR0_1flowchart.pdf vignettes/Fig4.pdf vignettes/Fig3.pdf vignettes/CellNOptR-examples.R
vignettes/CellNOptR-vignette.Rnw
vignettes/Fig5.png
vignettes/Fig2.pdf
vignettes/Fig1.png
vignettes/Fig8.pdf vignettes/Fig6.pdf vignettes/Fig7.pdf
src/simulatorTN.c
src/simulatorT1.c
src/Makevars
src/getFit.c
R/cutModel.R R/writeScaffold.R R/writeReport.R R/plotOptimResults.R R/buildBitString.R R/readSBMLQual.R R/gaBinaryT2.R R/gaBinaryTN.R R/simulatorT2.R R/writeMIDAS.R R/plotCNOlistPDF.R R/simulatorTN.R R/residualError.R R/graph2sif.R R/plotCNOlistLargePDF.R R/plotOptimResultsPDF.R R/rSimulatorT1.R R/model2sif.R R/simulatorT0.R R/exhaustive.R R/cutCNOlist.R R/writeDot.R R/CNORwrap.R R/simulateTN.R R/CNOlist.R R/readSIF.R R/prep4sim.R R/CNOdata.R R/gaBinaryT1.R R/cutNONC.R R/simulatorT1.R R/cSimulator.R R/sif2graph.R R/mapBack.R R/cutSimList.R R/readMIDAS.R R/deprecated.R R/plotCNOlist2.R R/compressModel.R R/findNONC.R R/defaultParameters.R R/cutAndPlotResultsTN.R R/getFit.R R/plotOptimResultsPan.R R/checkSignals.R R/cutAndPlot.R R/indexFinder.R R/computeScoreT1.R R/model2igraph.R R/writeSIF.R R/plotCNOlistLarge.R R/writeNetwork.R R/expandGates.R R/plotFit.R R/CNORbool.R R/cutAndPlotResultsT1.R R/preprocessing.R R/CellNOptR-internal.R R/plotModel.R R/randomizeCNOlist.R R/makeCNOlist.R R/normaliseCNOlist.R R/plotCNOlist.R R/computeScoreTN.R
build/vignette.rds
inst/NEWS.Rd
inst/DREAMmodel/LiverPKNDREAM.sif
inst/DREAMmodel/LiverDataDREAMMIDAS.csv
inst/ToyModel/ToyDataMMB.csv
inst/ToyModel/ToyModelMMB2.sif
inst/ToyModel/ToyPKNMMB.sif
inst/ToyModelT3/ToyModelT3.sif
inst/ToyModelT3/ToyDataT3.csv
inst/doc/CellNOptR-vignette.R inst/doc/CellNOptR-vignette.pdf
inst/doc/CellNOptR-vignette.Rnw
inst/templates/phinou.jpeg
inst/templates/logo_saezrodriguez_mid.gif
inst/templates/CNOR.css
inst/templates/bordercorner2.jpg
inst/templates/bordercorner.jpg
inst/templates/Rlogo.png
tests/test_manySteadyStates.R tests/test_priorBitString.R tests/test_simulateTN.R tests/test_gaBinaryT1.R tests/test_gaBinaryT3.R tests/test_gaBinaryT2.R man/randomizeCNOlist.Rd man/writeSIF.Rd man/CNOlistToy.Rd man/mapBack.Rd man/gaBinaryTN.Rd man/normaliseCNOlist.Rd man/cutAndPlotResultsTN.Rd man/checkSignals.Rd man/cutNONC.Rd man/CNOdata.Rd man/cSimulator.Rd man/preprocessing.Rd man/simulateTN.Rd man/prep4sim.Rd man/model2sif.Rd man/defaultParameters.Rd man/cutAndPlot.Rd man/CNOlist-class.Rd man/plot-methods.Rd man/computeScoreTN.Rd man/plotCNOlistLarge.Rd man/makeCNOlist.Rd man/readSIF.Rd man/residualError.Rd man/findNONC.Rd man/buildBitString.Rd man/simulatorTN.Rd man/plotModel.Rd man/cutCNOlist.Rd man/cutModel.Rd man/CNORwrap.Rd man/CNOlist-methods.Rd man/plotCNOlistLargePDF.Rd man/sif2graph.Rd man/graph2sif.Rd man/readMIDAS.Rd man/writeMIDAS.Rd man/simulatorT0.Rd man/simulatorT1.Rd man/CNORbool.Rd man/expandGates.Rd man/writeDot.Rd man/writeReport.Rd man/plotCNOlistPDF.Rd man/getFit.Rd man/CNOlistToyMMB.Rd man/CellNOptR-package.Rd man/readSBMLQual.Rd man/CNOlistToy2.Rd man/simulatorT2.Rd man/DreamModel.Rd man/gaBinaryT1.Rd man/cutSimList.Rd man/compressModel.Rd man/indexFinder.Rd man/writeNetwork.Rd man/ToyModel.Rd man/exhaustive.Rd man/cutAndPlotResultsT1.Rd man/plotCNOlist2.Rd man/gaBinaryT2.Rd man/plotCNOlist.Rd man/plotFit.Rd man/simulateT1.Rd man/model2igraph.Rd man/plotOptimResults.Rd man/plotOptimResultsPan.Rd man/plotOptimResultsPDF.Rd man/ToyModel2.Rd man/computeScoreT1.Rd man/CNOlistDREAM.Rd man/internals.Rd man/writeScaffold.Rd
CellNOptR documentation built on Nov. 17, 2017, 9:08 a.m.