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NAMESPACE
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NAMESPACE
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# Generated by roxygen2: do not edit by hand
S3method(.DollarNames,CosmxReader)
S3method(.DollarNames,VisiumHDReader)
S3method(.DollarNames,XeniumReader)
export("%>%")
export("activeFeatType<-")
export("activeSpatUnit<-")
export("ext<-")
export("featType<-")
export("instructions<-")
export("objName<-")
export("prov<-")
export("sankeyLabel<-")
export("sankeyRelate<-")
export("spatUnit<-")
export(activeFeatType)
export(activeSpatUnit)
export(addCellIntMetadata)
export(addCellMetadata)
export(addCellStatistics)
export(addFeatMetadata)
export(addFeatStatistics)
export(addFeatsPerc)
export(addGiottoImage)
export(addGiottoImageMG)
export(addGiottoImageToSpatPlot)
export(addGiottoLargeImage)
export(addGiottoPoints)
export(addGiottoPoints3D)
export(addGiottoPolygons)
export(addHMRF)
export(addHMRF_V2)
export(addNetworkLayout)
export(addPolygonCells)
export(addSpatialCentroidLocations)
export(addSpatialCentroidLocationsLayer)
export(addStatistics)
export(addVisiumPolygons)
export(adjustGiottoMatrix)
export(aggregateStacks)
export(aggregateStacksExpression)
export(aggregateStacksLocations)
export(aggregateStacksPolygonOverlaps)
export(aggregateStacksPolygons)
export(anndataToGiotto)
export(annotateGiotto)
export(annotateSpatialGrid)
export(annotateSpatialNetwork)
export(as.points)
export(as.polygons)
export(as.sf)
export(as.sp)
export(as.stars)
export(as.terra)
export(binSpect)
export(binSpectMulti)
export(binSpectSingle)
export(binSpectSingleMatrix)
export(calculateAffineMatrixFromLandmarks)
export(calculateHVF)
export(calculateMetaTable)
export(calculateMetaTableCells)
export(calculateOverlap)
export(calculateOverlapParallel)
export(calculateOverlapPolygonImages)
export(calculateOverlapRaster)
export(calculateOverlapSerial)
export(calculateSpatCellMetadataProportions)
export(callSpdep)
export(cellProximityBarplot)
export(cellProximityEnrichment)
export(cellProximityEnrichmentEachSpot)
export(cellProximityEnrichmentSpots)
export(cellProximityHeatmap)
export(cellProximityNetwork)
export(cellProximitySpatPlot)
export(cellProximitySpatPlot2D)
export(cellProximitySpatPlot3D)
export(cellProximityVisPlot)
export(centroids)
export(changeGiottoInstructions)
export(changeImageBg)
export(checkGiottoEnvironment)
export(circleVertices)
export(clusterCells)
export(clusterSpatialCorFeats)
export(clusterSpatialCorGenes)
export(combCCcom)
export(combineCPG)
export(combineCellData)
export(combineCellProximityGenes)
export(combineFeatureData)
export(combineFeatureOverlapData)
export(combineICF)
export(combineICG)
export(combineInteractionChangedFeats)
export(combineInteractionChangedGenes)
export(combineMetadata)
export(combineSpatialCellMetadataInfo)
export(combineToMultiPolygon)
export(compareCellAbundance)
export(comparePolygonExpression)
export(convertEnsemblToGeneSymbol)
export(convertGiottoLargeImageToMG)
export(copy)
export(createArchRProj)
export(createBentoAdata)
export(createCellMetaObj)
export(createCrossSection)
export(createDimObj)
export(createExprObj)
export(createFeatMetaObj)
export(createGiottoCosMxObject)
export(createGiottoImage)
export(createGiottoInstructions)
export(createGiottoLargeImage)
export(createGiottoLargeImageList)
export(createGiottoMerscopeObject)
export(createGiottoObject)
export(createGiottoObjectSubcellular)
export(createGiottoObjectfromArchR)
export(createGiottoPoints)
export(createGiottoPolygon)
export(createGiottoPolygonsFromDfr)
export(createGiottoPolygonsFromGeoJSON)
export(createGiottoPolygonsFromMask)
export(createGiottoVisiumHDObject)
export(createGiottoVisiumObject)
export(createGiottoXeniumObject)
export(createMerscopeLargeImage)
export(createMetafeats)
export(createNearestNetObj)
export(createNearestNetwork)
export(createSpatEnrObj)
export(createSpatLocsObj)
export(createSpatNetObj)
export(createSpatialDefaultGrid)
export(createSpatialDelaunayNetwork)
export(createSpatialFeaturesKNNnetwork)
export(createSpatialGenomicsObject)
export(createSpatialGrid)
export(createSpatialKNNnetwork)
export(createSpatialNetwork)
export(createSpatialWeightMatrix)
export(create_screeplot)
export(crop)
export(cropGiottoLargeImage)
export(crossSectionFeatPlot)
export(crossSectionFeatPlot3D)
export(crossSectionPlot)
export(crossSectionPlot3D)
export(density)
export(detectSpatialCorFeats)
export(detectSpatialCorFeatsMatrix)
export(detectSpatialPatterns)
export(dimCellPlot)
export(dimCellPlot2D)
export(dimFeatPlot2D)
export(dimFeatPlot3D)
export(dimGenePlot3D)
export(dimPlot)
export(dimPlot2D)
export(dimPlot3D)
export(distGiottoImage)
export(doCellSegmentation)
export(doCellposeSegmentation)
export(doClusterProjection)
export(doFeatureSetEnrichment)
export(doGiottoClustree)
export(doHMRF)
export(doHMRF_V2)
export(doHclust)
export(doKmeans)
export(doLeidenCluster)
export(doLeidenClusterIgraph)
export(doLeidenSubCluster)
export(doLouvainCluster)
export(doLouvainSubCluster)
export(doRandomWalkCluster)
export(doSNNCluster)
export(doScrubletDetect)
export(estimateAutomatedImageRegistrationWithSIFT)
export(estimateImageBg)
export(exportGiottoViewer)
export(exprCellCellcom)
export(ext)
export(fDataDT)
export(featExpDWLS)
export(featIDs)
export(featType)
export(featureNetwork)
export(fiji)
export(filterCPG)
export(filterCellProximityGenes)
export(filterCombinations)
export(filterDistributions)
export(filterGiotto)
export(filterICF)
export(filterICFSpot)
export(filterICG)
export(filterInteractionChangedFeats)
export(filterInteractionChangedGenes)
export(filterSpatialGenes)
export(findCPG)
export(findCellProximityGenes)
export(findCellTypesFromEnrichment)
export(findGiniMarkers)
export(findGiniMarkers_one_vs_all)
export(findICF)
export(findICFSpot)
export(findICG)
export(findInteractionChangedFeats)
export(findInteractionChangedGenes)
export(findMarkers)
export(findMarkers_one_vs_all)
export(findMastMarkers)
export(findMastMarkers_one_vs_all)
export(findNetworkNeighbors)
export(findScranMarkers)
export(findScranMarkers_one_vs_all)
export(flip)
export(gefToGiotto)
export(get10Xmatrix)
export(get10Xmatrix_h5)
export(getBalancedSpatCoexpressionFeats)
export(getCellMetadata)
export(getCellsFromPolygon)
export(getClusterSimilarity)
export(getColors)
export(getDendrogramSplits)
export(getDimReduction)
export(getDistinctColors)
export(getExpression)
export(getFeatureInfo)
export(getFeatureMetadata)
export(getGEFtxCoords)
export(getGiottoImage)
export(getMultiomics)
export(getNearestNetwork)
export(getONTraCv1Input)
export(getPolygonInfo)
export(getRainbowColors)
export(getSpatialEnrichment)
export(getSpatialGrid)
export(getSpatialLocations)
export(getSpatialNetwork)
export(giotto)
export(giottoImage)
export(giottoLargeImage)
export(giottoMasterToSuite)
export(giottoPoints)
export(giottoPolygon)
export(giottoSankeyPlan)
export(giottoToAnnData)
export(giottoToAnndataZarr)
export(giottoToSeurat)
export(giottoToSeuratV4)
export(giottoToSeuratV5)
export(giottoToSpatialExperiment)
export(heatmSpatialCorFeats)
export(hexVertices)
export(hist)
export(identifyTMAcores)
export(importCosMx)
export(importVisiumHD)
export(importXenium)
export(initHMRF_V2)
export(insertCrossSectionFeatPlot3D)
export(insertCrossSectionSpatPlot3D)
export(installGiottoEnvironment)
export(installGiottoONTraCEnvironment)
export(instructions)
export(interactiveLandmarkSelection)
export(jackstrawPlot)
export(joinGiottoObjects)
export(loadGiotto)
export(loadHMRF)
export(loadOntraCResults)
export(makePseudoVisium)
export(makeSignMatrixDWLS)
export(makeSignMatrixDWLSfromMatrix)
export(makeSignMatrixPAGE)
export(makeSignMatrixRank)
export(mergeClusters)
export(normalizeGiotto)
export(objHistory)
export(objName)
export(orthoGrid)
export(overlapImagesToMatrix)
export(overlapToMatrix)
export(overlapToMatrixMultiPoly)
export(overlaps)
export(pDataDT)
export(pieCellTypesFromEnrichment)
export(plotCCcomDotplot)
export(plotCCcomHeatmap)
export(plotCPF)
export(plotCTCompositionInNicheCluster)
export(plotCellProximityFeatSpot)
export(plotCellProximityFeats)
export(plotCellTypeNTScore)
export(plotCellTypesFromEnrichment)
export(plotCombineCCcom)
export(plotCombineCellCellCommunication)
export(plotCombineICF)
export(plotCombineInteractionChangedFeats)
export(plotGiottoImage)
export(plotHeatmap)
export(plotICF)
export(plotICFSpot)
export(plotInteractionChangedFeats)
export(plotInteractive3D)
export(plotInteractivePolygons)
export(plotMetaDataCellsHeatmap)
export(plotMetaDataHeatmap)
export(plotNicheClusterConnectivity)
export(plotPCA)
export(plotPCA_2D)
export(plotPCA_3D)
export(plotPolygons)
export(plotRankSpatvsExpr)
export(plotRecovery)
export(plotSpatNicheClusterBin)
export(plotSpatNicheClusterProb)
export(plotStatDelaunayNetwork)
export(plotTSNE)
export(plotTSNE_2D)
export(plotTSNE_3D)
export(plotUMAP)
export(plotUMAP_2D)
export(plotUMAP_3D)
export(polyStamp)
export(preprocessImageToMatrix)
export(print.combIcfObject)
export(print.icfObject)
export(processGiotto)
export(prov)
export(rankSpatialCorGroups)
export(read10xAffineImage)
export(readCellMetadata)
export(readDimReducData)
export(readExprData)
export(readExprMatrix)
export(readFeatData)
export(readFeatMetadata)
export(readGiottoInstructions)
export(readNearestNetData)
export(readPolygonData)
export(readPolygonFilesVizgen)
export(readPolygonFilesVizgenHDF5)
export(readPolygonFilesVizgenHDF5_old)
export(readPolygonVizgenParquet)
export(readSpatEnrichData)
export(readSpatLocsData)
export(readSpatNetData)
export(reconnectGiottoImage)
export(rectVertices)
export(reduceDims)
export(registerGiottoObjectList)
export(registerGiottoObjectListFiji)
export(registerGiottoObjectListRvision)
export(registerImagesFIJI)
export(removeCellAnnotation)
export(removeFeatAnnotation)
export(removeGiottoEnvironment)
export(replaceGiottoInstructions)
export(rescale)
export(rescalePolygons)
export(runDWLSDeconv)
export(runGiottoHarmony)
export(runHyperGeometricEnrich)
export(runIntegratedUMAP)
export(runNMF)
export(runONTraCV1)
export(runPAGEEnrich)
export(runPCA)
export(runPCAprojection)
export(runPCAprojectionBatch)
export(runPatternSimulation)
export(runRankEnrich)
export(runSpatialDeconv)
export(runSpatialEnrich)
export(runUMAP)
export(runUMAPprojection)
export(runWNN)
export(runtSNE)
export(sankeyLabel)
export(sankeyPlot)
export(sankeyRelate)
export(sankeySet)
export(sankeySetAddresses)
export(saveGiotto)
export(screePlot)
export(selectPatternGenes)
export(setCellMetadata)
export(setDimReduction)
export(setExpression)
export(setFeatureInfo)
export(setFeatureMetadata)
export(setGiotto)
export(setGiottoImage)
export(setMultiomics)
export(setNearestNetwork)
export(setPolygonInfo)
export(setSpatialEnrichment)
export(setSpatialGrid)
export(setSpatialLocations)
export(setSpatialNetwork)
export(seuratToGiotto)
export(seuratToGiottoV4)
export(seuratToGiottoV5)
export(showCellProportionSwitchedPie)
export(showCellProportionSwitchedSanKey)
export(showClusterDendrogram)
export(showClusterHeatmap)
export(showColorInstructions)
export(showGiottoCellMetadata)
export(showGiottoDimRed)
export(showGiottoExpression)
export(showGiottoFeatInfo)
export(showGiottoFeatMetadata)
export(showGiottoImageNames)
export(showGiottoInstructions)
export(showGiottoNearestNetworks)
export(showGiottoSpatEnrichments)
export(showGiottoSpatGrids)
export(showGiottoSpatLocs)
export(showGiottoSpatNetworks)
export(showGiottoSpatialInfo)
export(showPattern)
export(showPattern2D)
export(showPattern3D)
export(showPatternGenes)
export(showPolygonSizeInfluence)
export(showProcessingSteps)
export(showSaveParameters)
export(showSpatialCorFeats)
export(showSpatialCorGenes)
export(signPCA)
export(silhouetteRank)
export(silhouetteRankTest)
export(simulateOneGenePatternGiottoObject)
export(smoothGiottoPolygons)
export(spark)
export(spatCellCellcom)
export(spatCellCellcomSpots)
export(spatCellPlot)
export(spatCellPlot2D)
export(spatDeconvPlot)
export(spatDimCellPlot)
export(spatDimCellPlot2D)
export(spatDimFeatPlot2D)
export(spatDimFeatPlot3D)
export(spatDimGenePlot3D)
export(spatDimPlot)
export(spatDimPlot2D)
export(spatDimPlot3D)
export(spatFeatPlot2D)
export(spatFeatPlot2D_single)
export(spatFeatPlot3D)
export(spatGenePlot3D)
export(spatIDs)
export(spatInSituPlotDensity)
export(spatInSituPlotHex)
export(spatInSituPlotPoints)
export(spatNetwDistributions)
export(spatNetwDistributionsDistance)
export(spatNetwDistributionsKneighbors)
export(spatPlot)
export(spatPlot2D)
export(spatPlot3D)
export(spatQueryGiottoPolygons)
export(spatShift)
export(spatUnit)
export(spatialAEH)
export(spatialAutoCorGlobal)
export(spatialAutoCorLocal)
export(spatialDE)
export(spatialExperimentToGiotto)
export(spatialSplitCluster)
export(spdepAutoCorr)
export(specificCellCellcommunicationScores)
export(spin)
export(stitchFieldCoordinates)
export(stitchGiottoLargeImage)
export(subClusterCells)
export(subsetGiotto)
export(subsetGiottoLocs)
export(subsetGiottoLocsMulti)
export(subsetGiottoLocsSubcellular)
export(subsetSankeySet)
export(tessellate)
export(trendSceek)
export(triGrid)
export(updateGiottoImage)
export(updateGiottoImageMG)
export(updateGiottoLargeImage)
export(updateGiottoObject)
export(updateGiottoPointsObject)
export(updateGiottoPolygonObject)
export(vect)
export(viewHMRFresults)
export(viewHMRFresults2D)
export(viewHMRFresults3D)
export(viewHMRFresults_V2)
export(violinPlot)
export(wrap)
export(writeChatGPTqueryDEG)
export(writeGiottoLargeImage)
export(writeHMRFresults)
exportMethods("$")
exportMethods("$<-")
exportMethods(interpolateFeature)
exportMethods(labelTransfer)
import(GiottoClass)
import(GiottoUtils)
import(GiottoVisuals)
import(ggplot2)
import(methods)
import(stats, except = density)
import(utils)
importClassesFrom(data.table,data.table)
importFrom(GiottoClass,"activeFeatType<-")
importFrom(GiottoClass,"activeSpatUnit<-")
importFrom(GiottoClass,"ext<-")
importFrom(GiottoClass,"featType<-")
importFrom(GiottoClass,"instructions<-")
importFrom(GiottoClass,"objName<-")
importFrom(GiottoClass,"prov<-")
importFrom(GiottoClass,"spatUnit<-")
importFrom(GiottoClass,activeFeatType)
importFrom(GiottoClass,activeSpatUnit)
importFrom(GiottoClass,addCellMetadata)
importFrom(GiottoClass,addFeatMetadata)
importFrom(GiottoClass,addGiottoImage)
importFrom(GiottoClass,addGiottoImageMG)
importFrom(GiottoClass,addGiottoLargeImage)
importFrom(GiottoClass,addGiottoPoints)
importFrom(GiottoClass,addGiottoPoints3D)
importFrom(GiottoClass,addGiottoPolygons)
importFrom(GiottoClass,addNetworkLayout)
importFrom(GiottoClass,addSpatialCentroidLocations)
importFrom(GiottoClass,addSpatialCentroidLocationsLayer)
importFrom(GiottoClass,aggregateStacks)
importFrom(GiottoClass,aggregateStacksExpression)
importFrom(GiottoClass,aggregateStacksLocations)
importFrom(GiottoClass,aggregateStacksPolygonOverlaps)
importFrom(GiottoClass,aggregateStacksPolygons)
importFrom(GiottoClass,anndataToGiotto)
importFrom(GiottoClass,annotateGiotto)
importFrom(GiottoClass,annotateSpatialGrid)
importFrom(GiottoClass,annotateSpatialNetwork)
importFrom(GiottoClass,as.points)
importFrom(GiottoClass,as.polygons)
importFrom(GiottoClass,as.sf)
importFrom(GiottoClass,as.sp)
importFrom(GiottoClass,as.stars)
importFrom(GiottoClass,as.terra)
importFrom(GiottoClass,calculateMetaTable)
importFrom(GiottoClass,calculateMetaTableCells)
importFrom(GiottoClass,calculateOverlap)
importFrom(GiottoClass,calculateOverlapParallel)
importFrom(GiottoClass,calculateOverlapPolygonImages)
importFrom(GiottoClass,calculateOverlapRaster)
importFrom(GiottoClass,calculateOverlapSerial)
importFrom(GiottoClass,calculateSpatCellMetadataProportions)
importFrom(GiottoClass,centroids)
importFrom(GiottoClass,changeGiottoInstructions)
importFrom(GiottoClass,changeImageBg)
importFrom(GiottoClass,checkGiottoEnvironment)
importFrom(GiottoClass,circleVertices)
importFrom(GiottoClass,combineCellData)
importFrom(GiottoClass,combineFeatureData)
importFrom(GiottoClass,combineFeatureOverlapData)
importFrom(GiottoClass,combineMetadata)
importFrom(GiottoClass,combineSpatialCellMetadataInfo)
importFrom(GiottoClass,combineToMultiPolygon)
importFrom(GiottoClass,convertGiottoLargeImageToMG)
importFrom(GiottoClass,copy)
importFrom(GiottoClass,createBentoAdata)
importFrom(GiottoClass,createCellMetaObj)
importFrom(GiottoClass,createDimObj)
importFrom(GiottoClass,createExprObj)
importFrom(GiottoClass,createFeatMetaObj)
importFrom(GiottoClass,createGiottoImage)
importFrom(GiottoClass,createGiottoInstructions)
importFrom(GiottoClass,createGiottoLargeImage)
importFrom(GiottoClass,createGiottoLargeImageList)
importFrom(GiottoClass,createGiottoObject)
importFrom(GiottoClass,createGiottoObjectSubcellular)
importFrom(GiottoClass,createGiottoPoints)
importFrom(GiottoClass,createGiottoPolygon)
importFrom(GiottoClass,createGiottoPolygonsFromDfr)
importFrom(GiottoClass,createGiottoPolygonsFromGeoJSON)
importFrom(GiottoClass,createGiottoPolygonsFromMask)
importFrom(GiottoClass,createMetafeats)
importFrom(GiottoClass,createNearestNetObj)
importFrom(GiottoClass,createNearestNetwork)
importFrom(GiottoClass,createSpatEnrObj)
importFrom(GiottoClass,createSpatLocsObj)
importFrom(GiottoClass,createSpatNetObj)
importFrom(GiottoClass,createSpatialDefaultGrid)
importFrom(GiottoClass,createSpatialDelaunayNetwork)
importFrom(GiottoClass,createSpatialFeaturesKNNnetwork)
importFrom(GiottoClass,createSpatialGrid)
importFrom(GiottoClass,createSpatialKNNnetwork)
importFrom(GiottoClass,createSpatialNetwork)
importFrom(GiottoClass,createSpatialWeightMatrix)
importFrom(GiottoClass,crop)
importFrom(GiottoClass,cropGiottoLargeImage)
importFrom(GiottoClass,density)
importFrom(GiottoClass,distGiottoImage)
importFrom(GiottoClass,estimateImageBg)
importFrom(GiottoClass,ext)
importFrom(GiottoClass,fDataDT)
importFrom(GiottoClass,featIDs)
importFrom(GiottoClass,featType)
importFrom(GiottoClass,featureNetwork)
importFrom(GiottoClass,flip)
importFrom(GiottoClass,gefToGiotto)
importFrom(GiottoClass,getCellMetadata)
importFrom(GiottoClass,getDimReduction)
importFrom(GiottoClass,getExpression)
importFrom(GiottoClass,getFeatureInfo)
importFrom(GiottoClass,getFeatureMetadata)
importFrom(GiottoClass,getGiottoImage)
importFrom(GiottoClass,getMultiomics)
importFrom(GiottoClass,getNearestNetwork)
importFrom(GiottoClass,getPolygonInfo)
importFrom(GiottoClass,getSpatialEnrichment)
importFrom(GiottoClass,getSpatialGrid)
importFrom(GiottoClass,getSpatialLocations)
importFrom(GiottoClass,getSpatialNetwork)
importFrom(GiottoClass,giotto)
importFrom(GiottoClass,giottoImage)
importFrom(GiottoClass,giottoLargeImage)
importFrom(GiottoClass,giottoMasterToSuite)
importFrom(GiottoClass,giottoPoints)
importFrom(GiottoClass,giottoPolygon)
importFrom(GiottoClass,giottoToAnnData)
importFrom(GiottoClass,giottoToSeurat)
importFrom(GiottoClass,giottoToSeuratV4)
importFrom(GiottoClass,giottoToSeuratV5)
importFrom(GiottoClass,giottoToSpatialExperiment)
importFrom(GiottoClass,hexVertices)
importFrom(GiottoClass,hist)
importFrom(GiottoClass,installGiottoEnvironment)
importFrom(GiottoClass,instructions)
importFrom(GiottoClass,joinGiottoObjects)
importFrom(GiottoClass,loadGiotto)
importFrom(GiottoClass,makePseudoVisium)
importFrom(GiottoClass,objHistory)
importFrom(GiottoClass,objName)
importFrom(GiottoClass,orthoGrid)
importFrom(GiottoClass,overlapImagesToMatrix)
importFrom(GiottoClass,overlapToMatrix)
importFrom(GiottoClass,overlapToMatrixMultiPoly)
importFrom(GiottoClass,overlaps)
importFrom(GiottoClass,pDataDT)
importFrom(GiottoClass,plotGiottoImage)
importFrom(GiottoClass,polyStamp)
importFrom(GiottoClass,prov)
importFrom(GiottoClass,readCellMetadata)
importFrom(GiottoClass,readDimReducData)
importFrom(GiottoClass,readExprData)
importFrom(GiottoClass,readExprMatrix)
importFrom(GiottoClass,readFeatData)
importFrom(GiottoClass,readFeatMetadata)
importFrom(GiottoClass,readGiottoInstructions)
importFrom(GiottoClass,readNearestNetData)
importFrom(GiottoClass,readPolygonData)
importFrom(GiottoClass,readSpatEnrichData)
importFrom(GiottoClass,readSpatLocsData)
importFrom(GiottoClass,readSpatNetData)
importFrom(GiottoClass,reconnectGiottoImage)
importFrom(GiottoClass,rectVertices)
importFrom(GiottoClass,removeCellAnnotation)
importFrom(GiottoClass,removeFeatAnnotation)
importFrom(GiottoClass,removeGiottoEnvironment)
importFrom(GiottoClass,replaceGiottoInstructions)
importFrom(GiottoClass,rescale)
importFrom(GiottoClass,rescalePolygons)
importFrom(GiottoClass,saveGiotto)
importFrom(GiottoClass,setCellMetadata)
importFrom(GiottoClass,setDimReduction)
importFrom(GiottoClass,setExpression)
importFrom(GiottoClass,setFeatureInfo)
importFrom(GiottoClass,setFeatureMetadata)
importFrom(GiottoClass,setGiotto)
importFrom(GiottoClass,setGiottoImage)
importFrom(GiottoClass,setMultiomics)
importFrom(GiottoClass,setNearestNetwork)
importFrom(GiottoClass,setPolygonInfo)
importFrom(GiottoClass,setSpatialEnrichment)
importFrom(GiottoClass,setSpatialGrid)
importFrom(GiottoClass,setSpatialLocations)
importFrom(GiottoClass,setSpatialNetwork)
importFrom(GiottoClass,seuratToGiotto)
importFrom(GiottoClass,seuratToGiottoV4)
importFrom(GiottoClass,seuratToGiottoV5)
importFrom(GiottoClass,showGiottoCellMetadata)
importFrom(GiottoClass,showGiottoDimRed)
importFrom(GiottoClass,showGiottoExpression)
importFrom(GiottoClass,showGiottoFeatInfo)
importFrom(GiottoClass,showGiottoFeatMetadata)
importFrom(GiottoClass,showGiottoImageNames)
importFrom(GiottoClass,showGiottoInstructions)
importFrom(GiottoClass,showGiottoNearestNetworks)
importFrom(GiottoClass,showGiottoSpatEnrichments)
importFrom(GiottoClass,showGiottoSpatGrids)
importFrom(GiottoClass,showGiottoSpatLocs)
importFrom(GiottoClass,showGiottoSpatNetworks)
importFrom(GiottoClass,showGiottoSpatialInfo)
importFrom(GiottoClass,showProcessingSteps)
importFrom(GiottoClass,smoothGiottoPolygons)
importFrom(GiottoClass,spatIDs)
importFrom(GiottoClass,spatQueryGiottoPolygons)
importFrom(GiottoClass,spatShift)
importFrom(GiottoClass,spatUnit)
importFrom(GiottoClass,spatialExperimentToGiotto)
importFrom(GiottoClass,spin)
importFrom(GiottoClass,stitchFieldCoordinates)
importFrom(GiottoClass,stitchGiottoLargeImage)
importFrom(GiottoClass,subsetGiotto)
importFrom(GiottoClass,subsetGiottoLocs)
importFrom(GiottoClass,subsetGiottoLocsMulti)
importFrom(GiottoClass,subsetGiottoLocsSubcellular)
importFrom(GiottoClass,tessellate)
importFrom(GiottoClass,triGrid)
importFrom(GiottoClass,updateGiottoImage)
importFrom(GiottoClass,updateGiottoImageMG)
importFrom(GiottoClass,updateGiottoLargeImage)
importFrom(GiottoClass,updateGiottoObject)
importFrom(GiottoClass,updateGiottoPointsObject)
importFrom(GiottoClass,updateGiottoPolygonObject)
importFrom(GiottoClass,vect)
importFrom(GiottoClass,wrap)
importFrom(GiottoClass,writeGiottoLargeImage)
importFrom(GiottoUtils,"%>%")
importFrom(GiottoUtils,getDistinctColors)
importFrom(GiottoUtils,getRainbowColors)
importFrom(GiottoVisuals,"sankeyLabel<-")
importFrom(GiottoVisuals,"sankeyRelate<-")
importFrom(GiottoVisuals,addGiottoImageToSpatPlot)
importFrom(GiottoVisuals,dimCellPlot)
importFrom(GiottoVisuals,dimCellPlot2D)
importFrom(GiottoVisuals,dimFeatPlot2D)
importFrom(GiottoVisuals,dimFeatPlot3D)
importFrom(GiottoVisuals,dimGenePlot3D)
importFrom(GiottoVisuals,dimPlot)
importFrom(GiottoVisuals,dimPlot2D)
importFrom(GiottoVisuals,dimPlot3D)
importFrom(GiottoVisuals,getColors)
importFrom(GiottoVisuals,giottoSankeyPlan)
importFrom(GiottoVisuals,plotHeatmap)
importFrom(GiottoVisuals,plotMetaDataCellsHeatmap)
importFrom(GiottoVisuals,plotMetaDataHeatmap)
importFrom(GiottoVisuals,plotPCA)
importFrom(GiottoVisuals,plotPCA_2D)
importFrom(GiottoVisuals,plotPCA_3D)
importFrom(GiottoVisuals,plotStatDelaunayNetwork)
importFrom(GiottoVisuals,plotTSNE)
importFrom(GiottoVisuals,plotTSNE_2D)
importFrom(GiottoVisuals,plotTSNE_3D)
importFrom(GiottoVisuals,plotUMAP)
importFrom(GiottoVisuals,plotUMAP_2D)
importFrom(GiottoVisuals,plotUMAP_3D)
importFrom(GiottoVisuals,sankeyLabel)
importFrom(GiottoVisuals,sankeyPlot)
importFrom(GiottoVisuals,sankeyRelate)
importFrom(GiottoVisuals,sankeySet)
importFrom(GiottoVisuals,sankeySetAddresses)
importFrom(GiottoVisuals,showClusterDendrogram)
importFrom(GiottoVisuals,showClusterHeatmap)
importFrom(GiottoVisuals,showColorInstructions)
importFrom(GiottoVisuals,showSaveParameters)
importFrom(GiottoVisuals,spatCellPlot)
importFrom(GiottoVisuals,spatCellPlot2D)
importFrom(GiottoVisuals,spatDeconvPlot)
importFrom(GiottoVisuals,spatDimCellPlot)
importFrom(GiottoVisuals,spatDimCellPlot2D)
importFrom(GiottoVisuals,spatDimFeatPlot2D)
importFrom(GiottoVisuals,spatDimFeatPlot3D)
importFrom(GiottoVisuals,spatDimGenePlot3D)
importFrom(GiottoVisuals,spatDimPlot)
importFrom(GiottoVisuals,spatDimPlot2D)
importFrom(GiottoVisuals,spatDimPlot3D)
importFrom(GiottoVisuals,spatFeatPlot2D)
importFrom(GiottoVisuals,spatFeatPlot2D_single)
importFrom(GiottoVisuals,spatFeatPlot3D)
importFrom(GiottoVisuals,spatGenePlot3D)
importFrom(GiottoVisuals,spatInSituPlotDensity)
importFrom(GiottoVisuals,spatInSituPlotHex)
importFrom(GiottoVisuals,spatInSituPlotPoints)
importFrom(GiottoVisuals,spatNetwDistributions)
importFrom(GiottoVisuals,spatNetwDistributionsDistance)
importFrom(GiottoVisuals,spatNetwDistributionsKneighbors)
importFrom(GiottoVisuals,spatPlot)
importFrom(GiottoVisuals,spatPlot2D)
importFrom(GiottoVisuals,spatPlot3D)
importFrom(GiottoVisuals,subsetSankeySet)
importFrom(GiottoVisuals,violinPlot)
importFrom(data.table,data.table)
importFrom(data.table,frank)
importFrom(data.table,fread)
importFrom(data.table,merge.data.table)
importFrom(data.table,setDT)
importFrom(data.table,setnames)
importFrom(data.table,setorder)