AFM-package	AFM
addNode	addNode
AFM	AFM
AFMImage	AFMImage-class
AFMImage-class	AFMImage-class
AFMImage3DModelAnalysis	AFMImage3DModelAnalysis-class
AFMImage3DModelAnalysis-class	AFMImage3DModelAnalysis-class
AFMImageAnalyser	AFMImageAnalyser-class
AFMImageAnalyser-class	AFMImageAnalyser-class
AFMImageCollagenNetwork	AFMImageCollagenNetwork
AFMImageFractalDimensionMethod	AFMImageFractalDimensionMethod-class
AFMImageFractalDimensionMethod-class	AFMImageFractalDimensionMethod-class
AFMImageFractalDimensionsAnalysis	AFMImageFractalDimensionsAnalysis-class
AFMImageFractalDimensionsAnalysis-class	AFMImageFractalDimensionsAnalysis-class
AFMImageGaussianMixAnalysis	AFMImageGaussianMixAnalysis-class
AFMImageGaussianMixAnalysis-class	AFMImageGaussianMixAnalysis-class
AFMImageNetworksAnalysis	AFMImageNetworksAnalysis-class
AFMImageNetworksAnalysis-class	AFMImageNetworksAnalysis-class
AFMImageOfAluminiumInterface	AFMImageOfAluminiumInterface
AFMImageOfNormallyDistributedHeights	AFMImageOfNormallyDistributedHeights
AFMImageOfOnePeak	AFMImageOfOnePeak
AFMImageOfRegularPeaks	AFMImageOfRegularPeaks
AFMImagePSDAnalysis	AFMImagePSDAnalysis-class
AFMImagePSDAnalysis-class	AFMImagePSDAnalysis-class
AFMImagePSDSlopesAnalysis	AFMImagePSDSlopesAnalysis-class
AFMImagePSDSlopesAnalysis-class	AFMImagePSDSlopesAnalysis-class
AFMImageVariogramAnalysis	AFMImageVariogramAnalysis-class
AFMImageVariogramAnalysis-class	AFMImageVariogramAnalysis-class
AFMImageVariogramModel	AFMImageVariogramModel-class
AFMImageVariogramModel-class	AFMImageVariogramModel-class
AFMImageVariogramSlopesAnalysis	AFMImageVariogramSlopesAnalysis-class
AFMImageVariogramSlopesAnalysis-class	AFMImageVariogramSlopesAnalysis-class
analyse	analyse
AreNodesConnected	AreNodesConnected
calculate3DModel	calculate3DModel-methods
calculate3DModel,AFMImage-method	calculate3DModel-methods
calculate3DModel,AFMImage3DModelAnalysis-method	calculate3DModel-methods
calculateDirectionalVariograms	AFMImageVariogramAnalyser-calculateDirectionalVariograms
calculateGaussianMixture	calculateGaussianMixture
calculateHolesCharacteristics	calculateHolesCharacteristics
calculateIgraph	calculateIgraph
calculateNetworkParameters	calculateNetworkParameters
calculateNetworks	calculateNetworks-methods
calculateNetworks,AFMImage-method	calculateNetworks-methods
calculateNetworks,AFMImageNetworksAnalysis-method	calculateNetworks-methods
calculateNetworkSkeleton	calculateNetworkSkeleton
calculateOmnidirectionalVariogram	AFMImageVariogramAnalyser-calculateOmnidirectionalVariogram
calculatePhysicalDistanceFromPath	calculatePhysicalDistanceFromPath
calculateShortestPaths	calculateShortestPaths
canBeRemoved	canBeRemoved
checkIsotropy	checkIsotropy
checkNormality	checkNormality
createGraph	createGraph
directionalVariograms	AFMImageVariogramAnalysis-class
directionalVariograms,AFMImageVariogramAnalysis-method	AFMImageVariogramAnalysis-class
displayColoredNetworkWithVerticesSize	displayColoredNetworkWithVerticesSize
displaygridIgraphPlot	displaygridIgraphPlot
displaygridIgraphPlotFromEdges	displaygridIgraphPlotFromEdges
displayHolesIn3D	displayHolesIn3D
displayIn3D	displayIn3D
dnormalmix	dnormalmix
epsilonGaussianMix	AFMImageGaussianMixAnalysis-class
epsilonGaussianMix,AFMImageGaussianMixAnalysis-method	AFMImageGaussianMixAnalysis-class
evaluateVariogramModels	AFMImageVariogramAnalysis-evaluateVariogramModels-method
evaluateVariogramModels,AFMImageVariogramAnalysis-method	AFMImageVariogramAnalysis-evaluateVariogramModels-method
existsEdge	existsEdge
existsSegment	existsSegment
exportToSTL	exportToSTL
extractAFMImage	AFMImage-extractAFMImage
filterAFMImage	AFMImage-filterAFMImage
fractalDimensionMethods	AFMImageFractalDimensionsAnalysis-class
fractalDimensionMethods,AFMImageFractalDimensionsAnalysis-method	AFMImageFractalDimensionsAnalysis-class
fusionCloseNodes	fusionCloseNodes
gaussianMix	AFMImageGaussianMixAnalysis-class
gaussianMix,AFMImageGaussianMixAnalysis-method	AFMImageGaussianMixAnalysis-class
generateAFMImageReport	generateAFMImageReport
generateCheckReport	generateCheckReport
generatePolygonEnvelope	generatePolygonEnvelope
generateReport	generateReport
generateReportFromNanoscopeImageDirectory	generateReportFromNanoscopeImageDirectory
get3DImageFullfilename	get3DImageFullfilename
getAllPointsToRemove	getAllPointsToRemove
getAngle	getAngle
getAutoIntersectionForOmnidirectionalVariogram	getAutoIntersectionForOmnidirectionalVariogram
getAutoIntersectionForRoughnessAgainstLengthscale	getAutoIntersectionForRoughnessAgainstLengthscale
getAutomaticWidthForVariogramCalculation	AFMImageVariogramAnalyser-getAutomaticWidthForVariogramCalculation
getBresenham2DSegment	getBresenham2DSegment
getCircleSpatialPoints	getCircleSpatialPoints
getCoordinatesFromVertexId	getCoordinatesFromVertexId
getDTModelEvaluation	AFMImageVariogramAnalysis-getDTModelEvaluation-method
getDTModelEvaluation,AFMImageVariogramAnalysis-method	AFMImageVariogramAnalysis-getDTModelEvaluation-method
getDTModelSillRange	AFMImageVariogramAnalysis-getDTModelSillRange-method
getDTModelSillRange,AFMImageVariogramAnalysis-method	AFMImageVariogramAnalysis-getDTModelSillRange-method
getFractalDimensions	AFMFractalDimensionAnalyser-getFractalDimensions
getHolesStatistics	AFMImage-getHolesStatistics
getIntersectionForRoughnessAgainstLengthscale	getIntersectionForRoughnessAgainstLengthscale
getIntersectionPointWithBorder	getIntersectionPointWithBorder
getListOfDiameters	getListOfDiameters
getLogLogOmnidirectionalSlopeGraph	getLogLogOmnidirectionalSlopeGraph
getMaxCircleMatrix	getMaxCircleMatrix
getNetworkGridLayout	getNetworkGridLayout
getNetworkParameters	getNetworkParameters-methods
getNetworkParameters,AFMImage-method	getNetworkParameters-methods
getNetworkParameters,AFMImageNetworksAnalysis-method	getNetworkParameters-methods
getNyquistSpatialFrequency	getNyquistSpatialFrequency-methods
getNyquistSpatialFrequency,AFMImage-method	getNyquistSpatialFrequency-methods
getPaddedAFMImage	getPaddedAFMImage
getRoughnessParameters	getRoughnessParameters-methods
getRoughnessParameters,AFMImage-method	getRoughnessParameters-methods
getSpplotFromAFMImage	AFMVariogramAnalyser-getSpplotFromAFMImage
getSurroundingVertexesList	getSurroundingVertexesList
getTopologyAFMImage	getTopologyAFMImage
getTriangle	getTriangle
getVertexId	getVertexId
gridIgraphPlot	gridIgraphPlot
identifyEdgesFromCircles	identifyEdgesFromCircles
identifyIsolatedNodes	identifyIsolatedNodes
identifyMaxCircleRadius	identifyMaxCircleRadius
identifyNodesAndEdges	identifyNodesAndEdges
identifyNodesWithCircles	identifyNodesWithCircles
importFromNanoscope	AFMImage-importFromNanoscope
initialize,AFMImage-method	AFMImage-class
initialize,AFMImageAnalyser-method	AFMImageAnalyser-class-initialize
initialize,AFMImageFractalDimensionMethod-method	AFMImageFractalDimensionMethod-class
initialize,AFMImageFractalDimensionsAnalysis-method	AFMImageFractalDimensionsAnalysis-class
initialize,AFMImageGaussianMixAnalysis-method	AFMImageGaussianMixAnalysis-class
initialize,AFMImageNetworksAnalysis-method	AFMImageNetworksAnalysis-class
initialize,AFMImagePSDAnalysis-method	AFMImagePSDAnalysis-class
initialize,AFMImagePSDSlopesAnalysis-method	AFMImagePSDSlopesAnalysis-class
initialize,AFMImageVariogramAnalysis-method	AFMImageVariogramAnalysis-class
initialize,AFMImageVariogramModel-method	AFMImageVariogramModel-class
initialize,AFMImageVariogramSlopesAnalysis-method	AFMImageVariogramSlopesAnalysis-class
intersections	AFMImagePSDAnalysis-class
intersections,AFMImagePSDAnalysis-method	AFMImagePSDAnalysis-class
invertBinaryAFMImage	AFMImage-invertBinaryAFMImage
isAdjacentToBetterVertex	isAdjacentToBetterVertex
isAngleBetweenEdgesAlwaysSuperiorToMinAngle	isAngleBetweenEdgesAlwaysSuperiorToMinAngle
isBinary	AFMImage-isBinary
loglike.normalmix	loglike.normalmix
makeBinaryAFMImage	AFMImage-makeBinaryAFMImage
maxGaussianMix	AFMImageGaussianMixAnalysis-class
maxGaussianMix,AFMImageGaussianMixAnalysis-method	AFMImageGaussianMixAnalysis-class
minGaussianMix	AFMImageGaussianMixAnalysis-class
minGaussianMix,AFMImageGaussianMixAnalysis-method	AFMImageGaussianMixAnalysis-class
multiplyHeightsAFMImage	AFMImage-multiplyHeightsAFMImage
omnidirectionalVariogram	AFMImageVariogramAnalysis-class
omnidirectionalVariogram,AFMImageVariogramAnalysis-method	AFMImageVariogramAnalysis-class
performAllPSDCalculation	performAllPSDCalculation
performGaussianMixCalculation	performGaussianMixCalculation
pnormmix	pnormmix
printVariogramModelEvaluations	printVariogramModelEvaluations
psd1d	AFMImagePSDAnalysis-class
psd1d,AFMImagePSDAnalysis-method	AFMImagePSDAnalysis-class
PSD1DAgainstFrequency	PSD1DAgainstFrequency-methods
PSD1DAgainstFrequency,AFMImage-method	PSD1DAgainstFrequency-methods
psd1d_breaks	AFMImagePSDAnalysis-class
psd1d_breaks,AFMImagePSDAnalysis-method	AFMImagePSDAnalysis-class
psd2d	AFMImagePSDAnalysis-class
psd2d,AFMImagePSDAnalysis-method	AFMImagePSDAnalysis-class
PSD2DAgainstFrequency	PSD2DAgainstFrequency-methods
PSD2DAgainstFrequency,AFMImage-method	PSD2DAgainstFrequency-methods
psd2d_maxHighLengthScale	AFMImagePSDAnalysis-class
psd2d_maxHighLengthScale,AFMImagePSDAnalysis-method	AFMImagePSDAnalysis-class
psd2d_truncHighLengthScale	AFMImagePSDAnalysis-class
psd2d_truncHighLengthScale,AFMImagePSDAnalysis-method	AFMImagePSDAnalysis-class
putAnalysisOnDisk	putAnalysisOnDisk-methods
putAnalysisOnDisk,AFMImageAnalyser-method	putAnalysisOnDisk-methods
putImagesFromAnalysisOnDisk	putImagesFromAnalysisOnDisk
removeLonguestEdge	removeLonguestEdge
removeNode	removeNode
roughnessAgainstLengthscale	AFMImagePSDAnalysis-class
roughnessAgainstLengthscale,AFMImagePSDAnalysis-method	AFMImagePSDAnalysis-class
RoughnessByLengthScale	RoughnessByLengthScale-methods
RoughnessByLengthScale,AFMImage-method	RoughnessByLengthScale-methods
runAFMApp	runAFMApp
sampleAFMImage	AFMImage-sampleAFMImage
saveOnDisk	AFMImage-saveOnDisk
saveOnDiskIntersectionForRoughnessAgainstLengthscale	saveOnDiskIntersectionForRoughnessAgainstLengthscale
saveSpplotFromAFMImage	AFMVariogramAnalyser-saveSpplotFromAFMImage
shiftedPSDuv	shiftedPSDuv
shiftFFT2D	shiftFFT2D
simplifyAFMImage	AFMImage-simplifyAFMImage
simplifyNetwork	simplifyNetwork
thinImage	thinImage
totalRMSRoughness	totalRMSRoughness
transformAFMImageForNetworkAnalysis	transformAFMImageForNetworkAnalysis-methods
transformAFMImageForNetworkAnalysis,AFMImage-method	transformAFMImageForNetworkAnalysis-methods
transformAFMImageForNetworkAnalysis,AFMImageNetworksAnalysis-method	transformAFMImageForNetworkAnalysis-methods
updateProgress	AFMImageVariogramAnalysis-updateProgress-method
updateProgress,AFMImageVariogramAnalysis-method	AFMImageVariogramAnalysis-updateProgress-method
variogramModels	AFMImageVariogramAnalysis-class
variogramModels,AFMImageVariogramAnalysis-method	AFMImageVariogramAnalysis-class
