CellNOptR-package	CellNOptR-package
buildBitString	buildBitString
CellNOptR	CellNOptR-package
checkSignals	checkSignals
CNOlist	CNOlist-class
CNOlist,ANY	CNOlist-class
CNOlist-class	CNOlist-class
CNOlistDREAM	CNOlistDREAM
CNOlistToy	CNOlistToy
CNOlistToy2	CNOlistToy2
CNORbool	CNORbool
CNORwrap	CNORwrap
compressModel	compressModel
computeScoreT1	computeScoreT1
computeScoreTN	computeScoreTN
cSimulator	cSimulator
cutAndPlot	cutAndPlot
cutAndPlotResultsT1	cutAndPlotResultsT1
cutAndPlotResultsT2	cutAndPlotResultsT2
cutAndPlotResultsTN	cutAndPlotResultsTN
cutModel	cutModel
cutNONC	cutNONC
cutSimList	cutSimList
defaultParameters	defaultParameters
DreamModel	DreamModel
expandGates	expandGates
findNONC	findNONC
gaBinaryT1	gaBinaryT1
gaBinaryT2	gaBinaryT2
gaBinaryTN	gaBinaryTN
getFit	getFit
graph2sif	graph2sif
indexFinder	indexFinder
makeCNOlist	makeCNOlist
mapBack	mapBack
model2sif	model2sif
normaliseCNOlist	normaliseCNOlist
plot,CNOlist,ANY-method	plot-methods
plot.CNOlist	plot-methods
plotCNOlist	plotCNOlist
plotCNOlistLarge	plotCNOlistLarge
plotCNOlistLargePDF	plotCNOlistLargePDF
plotCNOlistPDF	plotCNOlistPDF
plotFit	plotFit
plotModel	plotModel
plotOptimResults	plotOptimResults
plotOptimResultsPan	plotOptimResultsPan
plotOptimResultsPDF	plotOptimResultsPDF
prep4Sim	prep4sim
prep4sim	prep4sim
preprocessing	preprocessing
readMIDAS	readMIDAS
readMidas	readMIDAS
readSIF	readSIF
readSif	readSIF
residualError	residualError
show,CNOlist-method	CNOlist-class
sif2graph	sif2graph
simulateT1	simulateT1
simulateTN	simulateTN
simulatorT0	simulatorT0
simulatorT1	simulatorT1
simulatorT2	simulatorT2
simulatorTN	simulatorTN
ToyModel	ToyModel
ToyModel2	ToyModel2
writeDot	writeDot
writeMIDAS	writeMIDAS
writeNetwork	writeNetwork
writeReport	writeReport
writeScaffold	writeScaffold
writeSIF	writeSIF
writeSif	writeSIF
