API for MartinFXP/B-NEM
training of logical models from indirect measurements of perturbation experiments

Global functions
BP Source code
MC Source code
NOT Source code
OR Source code
X.prod Source code
absorption Man page Source code Source code
absorptionII Man page Source code Source code
addDumpnodes Source code
addEdge Source code Source code
addSignal Source code Source code
adj2dnf Source code Source code
adj2graph Source code Source code
bin2dec Source code
bnem Man page Source code
checkCNOlist Source code Source code
checkMethod Source code Source code
checkNEMlist Source code Source code
cnoFromData Source code
complement Source code
compressDnf Source code
compressDnfOld Source code
computeFc Man page Source code Source code
computeFcAsp Source code
computeFcDisc Source code
computeFcII Source code Source code
computeFcII2 Source code
computeFcIII Source code
computeScoreNemT1 Source code Source code
computeSm Source code Source code
convertGraph Man page Source code Source code
createCube Source code
crossTalk Source code
dataPKN Source code
dataRed Source code
dec2bin Source code
deleteEdge Source code Source code
deleteSignal Source code Source code
disc Source code Source code
dnf2adj Source code Source code
drawLocal Source code Source code
drawScores Source code Source code
dummyCNOlist Man page Source code Source code
egeneSel Source code
epiNEM2Bg Man page Source code
exSearch Source code Source code
expNorm Source code Source code
expandNEM Source code Source code
exportVars Source code Source code
findResiduals Man page Source code
fisher.cor.test Source code
gaBinaryNemT1 Source code Source code
gaRecon Source code
gene2protein Source code
getHierarchy Source code Source code
getNemFit Source code Source code
getStateII Source code
graph2adj Source code Source code
gsub2 Source code
hbNEM Source code
heatmapOP Man page Source code Source code
heatmapRaw Source code
isDag Source code Source code
kmeansNorm Source code Source code
localSearch Source code Source code
makeDesign Source code Source code
makeDesign2 Source code
makeDesignFull Source code Source code
makeGraphMat Source code
makeSif Source code
mcmc Source code
my.sim Source code
myCN2bioCN Source code
myGsea Source code Source code
netExp Source code
netExpFull Source code
nt2dec Source code
optScore Source code
pamNorm Source code Source code
par.cor Source code
partitionGraph Source code
perm.test Source code
plotBinary Source code
plotDnf Man page Source code Source code
preClingo Source code
preproData Source code
preprocessInput Source code
protein2gene Source code
rSimulatorT1 Source code
randomDnf Man page Source code Source code
reduceGraph Man page Source code Source code
removeCycles Source code Source code
resBNEM Source code
residualErrorNem Source code
resolveTrue Source code
sbnem Source code
simAnn Source code
simpleNorm Source code Source code
simulateDnf Source code Source code
simulateStates Source code
simulateStatesDAG Source code
simulateStatesRecursive Man page Source code Source code Source code
simulateStatesRecursiveAdd Source code Source code
simulateStatesRecursiveII Source code
simulateStatesRecursiveIII Source code
simulateStatesRecursiveLoops Source code
smoothMatrix Source code Source code
snem Source code
transClose Man page Source code Source code
transRed Man page Source code Source code
transRedOld Source code
transRedOld2 Source code
triples Source code
validateGraph Man page Source code Source code
whiskplot Source code
MartinFXP/B-NEM documentation built on June 24, 2017, 2:34 a.m.