miloR-package	miloR-package
annotateNhoods	annotateNhoods
buildFromAdjacency	buildFromAdjacency
buildGraph	buildGraph
buildNhoodGraph	buildNhoodGraph
calcNhoodDistance	calcNhoodDistance
calcNhoodExpression	calcNhoodExpression
checkSeparation	checkSeparation
computePvalue	computePvalue
countCells	countCells
findNhoodGroupMarkers	findNhoodGroupMarkers
findNhoodMarkers	findNhoodMarkers
fitGeneticPLGlmm	fitGeneticPLGlmm
fitGLMM	fitGLMM
fitPLGlmm	fitPLGlmm
glmmControl.defaults	glmmControl.defaults
graph	methods
graph,Milo-method	methods
graph<-	methods
graph<-,Milo-method	methods
graphSpatialFDR	graphSpatialFDR
groupNhoods	groupNhoods
initialiseG	initialiseG
initializeFullZ	initializeFullZ
makeNhoods	makeNhoods
matrix.trace	matrix.trace
Milo	Milo
Milo-class	Milo
Milo-methods	methods
miloR	miloR
nhoodAdjacency	methods
nhoodAdjacency,Milo-method	methods
nhoodAdjacency<-	methods
nhoodAdjacency<-,Milo-method	methods
nhoodCounts	methods
nhoodCounts,Milo-method	methods
nhoodCounts<-	methods
nhoodCounts<-,Milo-method	methods
nhoodDistances	methods
nhoodDistances,Milo-method	methods
nhoodDistances<-	methods
nhoodDistances<-,Milo-method	methods
nhoodExpression	methods
nhoodExpression,Milo-method	methods
nhoodExpression<-	methods
nhoodExpression<-,Milo-method	methods
nhoodGraph	methods
nhoodGraph,Milo-method	methods
nhoodGraph<-	methods
nhoodGraph<-,Milo-method	methods
nhoodIndex	methods
nhoodIndex,Milo-method	methods
nhoodIndex<-	methods
nhoodIndex<-,Milo-method	methods
nhoodReducedDim	methods
nhoodReducedDim,Milo-method	methods
nhoodReducedDim<-	methods
nhoodReducedDim<-,Milo-method	methods
nhoods	methods
nhoods,Milo-method	methods
nhoods<-	methods
nhoods<-,Milo-method	methods
plotDAbeeswarm	plotDAbeeswarm
plotNhoodCounts	plotNhoodCounts
plotNhoodExpressionDA	plotNhoodExpressionDA
plotNhoodExpressionGroups	plotNhoodExpressionDA
plotNhoodGraph	plotNhoodGraph
plotNhoodGraphDA	plotNhoodGraphDA
plotNhoodGroups	plotNhoodGroups
plotNhoodMA	plotNhoodMA
plotNhoodSizeHist	plotNhoodSizeHist
Satterthwaite_df	Satterthwaite_df
show	methods
show,Milo-method	methods
sim_discrete	sim_discrete
sim_family	sim_family
sim_nbglmm	sim_nbglmm
sim_trajectory	sim_trajectory
testDiffExp	testDiffExp
testNhoods	testNhoods
