API for CellNOptR
Training of boolean logic models of signalling networks using prior knowledge networks and perturbation data.

Global functions
CNORbool Man page Source code
CNORwrap Man page Source code
CNOdata Man page Source code
CNOlist Man page Source code
CNOlist,ANY Man page
CNOlist-class Man page
CNOlist-methods Man page
CNOlistDREAM Man page
CNOlistToy Man page
CNOlistToy2 Man page
CNOlistToyMMB Man page
CellNOptR Man page
CellNOptR-package Man page
DreamModel Man page
ToyModel Man page
ToyModel2 Man page
addPriorKnowledge Source code Source code Source code
add_dummies Source code
buildBitString Man page Source code
cSimulator Man page Source code
checkSignals Man page Source code
clean_dot Source code
cnolist2ggdata Source code
compareNA Source code
compatCNOlist Man page
compatCNOlist,CNOlist Man page
compatCNOlist,CNOlist,CNOlist-method Man page
compatCNOlist,CNOlist-method Man page
compressModel Man page Source code
computeScoreT1 Man page Source code
computeScoreTN Man page Source code
createEdgeAttrs Source code
createNodeAttrs Source code
create_layout Source code
cutAndPlot Man page Source code
cutAndPlotResultsT1 Man page Source code
cutAndPlotResultsTN Man page Source code
cutCNOlist Man page Source code
cutCNOlistModel Source code
cutCNOlistTimeIndices Source code
cutModel Man page Source code
cutNONC Man page Source code
cutSimList Man page Source code
defaultParameters Man page Source code
error.bar Source code Source code
exhaustive Man page Source code
expandGates Man page Source code
findNONC Man page Source code
gaBinaryT1 Man page Source code
gaBinaryT2 Man page Source code Source code
gaBinaryTN Man page Source code
getCues Man page
getCues,CNOlist Man page
getCues,CNOlist-method Man page
getDotInfo Source code
getFit Man page Source code
getInhibitors Man page
getInhibitors,CNOlist Man page
getInhibitors,CNOlist-method Man page Man page
getNetworkInfo Source code
getSifInfo Source code
getSignals Man page
getSignals,CNOlist Man page
getSignals,CNOlist,CNOlist-method Man page
getSignals,CNOlist-method Man page
getStimuli Man page
getStimuli,CNOlist Man page
getStimuli,CNOlist,CNOlist-method Man page
getStimuli,CNOlist-method Man page
getTimepoints Man page
getTimepoints,CNOlist Man page
getTimepoints,CNOlist,CNOlist-method Man page
getTimepoints,CNOlist-method Man page
getVariances Man page
getVariances,CNOlist Man page
getVariances,CNOlist,CNOlist-method Man page
getVariances,CNOlist-method Man page
graph2sif Man page Source code
indexFinder Man page Source code
inhibitors Source code
internal_CNOlist_from_file Source code
internal_CNOlist_from_makeCNOlist Source code
internal_compatCNOlist Source code
internal_simulateT1 Source code
internal_simulateTN Source code
internals Man page
length Man page
length,CNOlist Man page
length,CNOlist,ANY-method Man page
length,CNOlist-method Man page
makeCNOlist Man page Source code
mapBack Man page Source code
model2igraph Man page Source code
model2sif Man page Source code
normaliseCNOlist Man page Source code
nt2dec Source code Source code Source code
plot Man page
plot,CNOlist Man page
plot,CNOlist,ANY Man page
plot,CNOlist,ANY,CNOlist-method Man page
plot,CNOlist,ANY-method Man page
plot,CNOlist,CNOlist Man page
plot,CNOlist,CNOlist,CNOlist-method Man page Man page Man page
plot,CNOlist,CNOlist,CNOlist-methods Man page
plot,CNOlist,CNOlist-method Man page
plot,CNOlist,missing,CNOlist-method Man page
plot,CNOlist,missing-method Man page
plot,CNOlist-method Man page
plot.CNOlist Man page
plotCNOlist Man page Source code
plotCNOlist2 Man page Source code
plotCNOlistLarge Man page Source code
plotCNOlistLargePDF Man page Source code
plotCNOlistPDF Man page Source code
plotFit Man page Source code
plotModel Man page Source code
plotOptimResults Man page Source code
plotOptimResultsPDF Man page Source code
plotOptimResultsPan Man page Source code
prep4Sim Man page Source code
prep4sim Man page Source code
preprocessing Man page Source code
rSimulatorT1 Source code
randomize Man page
randomize,CNOlist Man page
randomize,CNOlist,CNOlist-method Man page
randomize,CNOlist-method Man page
randomizeCNOlist Man page Source code
readMIDAS Man page Source code
readMidas Man page
readSBMLQual Man page Man page Source code
readSIF Man page Source code
readSif Man page Source code
residualError Man page Source code
setEdgeRenderInfo Source code
setNodeRenderInfo Source code
setSignals<- Man page
setSignals<-,CNOlist Man page
setSignals<-,CNOlist,CNOlist-method Man page
setSignals<-,CNOlist-method Man page
sif2graph Man page Source code
signals Source code
simulateT1 Man page Source code
simulateT2 Source code
simulateTN Man page Source code
simulatorT0 Man page Source code
simulatorT1 Man page Source code
simulatorT2 Man page Source code
simulatorTN Man page Source code
stimuli Source code
writeDot Man page Source code
writeMIDAS Man page Source code
writeNetwork Man page Source code
writeNetworkW Source code
writeReport Man page Source code
writeSIF Man page Source code
writeScaffold Man page Source code
writeScaffoldW Source code
writeSif Man page
CellNOptR documentation built on Nov. 17, 2017, 9:08 a.m.