# Generated by roxygen2: do not edit by hand

S3method("$",VoltRon)

S3method("$<-",VoltRon)

S3method(as.VoltRon,Seurat)

S3method(as.VoltRon,SpatialExperiment)

S3method(as.Zarr,"magick-image")

export("vrCoordinates<-")

export("vrEmbeddings<-")

export("vrFeatureData<-")

export("vrGraph<-")

export("vrImages<-")

export("vrMainAssay<-")

export("vrMainChannel<-")

export("vrMainFeatureType<-")

export("vrMainImage<-")

export("vrMainSpatial<-")

export("vrSegments<-")

export("vrSpatialPoints<-")

export(FromSegmentToCrop)

export(Metadata)

export(SampleMetadata)

export(addAssay)

export(addFeature)

export(addMetadata)

export(addSpatialLayer)

export(annotateSpatialData)

export(as.AnnData)

export(as.Giotto)

export(as.OmeTiff)

export(as.OmeZarr)

export(as.Seurat)

export(as.SpatialExperiment)

export(as.VoltRon)

export(as.Zarr)

export(combineChannels)

export(combineGraphs)

export(convertAnnDataToVoltRon)

export(flipCoordinates)

export(formAssay)

export(formImage)

export(formVoltRon)

export(generateCosMxImage)

export(generateGeoJSON)

export(generateSegments)

export(generateTileData)

export(generateXeniumImage)

export(getBasilisk)

export(getClusters)

export(getDeconvolution)

export(getDiffExp)

export(getFeatures)

export(getHotSpotAnalysis)

export(getNicheAssay)

export(getPCA)

export(getProfileNeighbors)

export(getRcppAutomatedRegistration)

export(getRcppManualRegistration)

export(getRcppWarpImage)

export(getSpatialNeighbors)

export(getUMAP)

export(getVariableFeatures)

export(import10Xh5)

export(importCosMx)

export(importDBITSeq)

export(importGenePS)

export(importGeoMx)

export(importImageData)

export(importOpenST)

export(importPhenoCycler)

export(importSTOmics)

export(importVisium)

export(importVisiumHD)

export(importXenium)

export(loadVoltRon)

export(modulateImage)

export(normalizeData)

export(registerSpatialData)

export(resizeImage)

export(saveVoltRon)

export(transferData)

export(updateAssay)

export(vrAssayNames)

export(vrAssayParams)

export(vrAssayTypes)

export(vrBarPlot)

export(vrCoordinates)

export(vrData)

export(vrEmbeddingFeaturePlot)

export(vrEmbeddingNames)

export(vrEmbeddingPlot)

export(vrEmbeddings)

export(vrFeatureData)

export(vrFeatureTypeNames)

export(vrFeatures)

export(vrGraph)

export(vrGraphNames)

export(vrHeatmapPlot)

export(vrImageChannelNames)

export(vrImageNames)

export(vrImages)

export(vrMainAssay)

export(vrMainChannel)

export(vrMainFeatureType)

export(vrMainImage)

export(vrMainSpatial)

export(vrNeighbourhoodEnrichment)

export(vrNeighbourhoodEnrichmentPlot)

export(vrProportionPlot)

export(vrSampleNames)

export(vrScatterPlot)

export(vrSegments)

export(vrSpatialFeaturePlot)

export(vrSpatialNames)

export(vrSpatialPlot)

export(vrSpatialPoints)

export(vrViolinPlot)

exportClasses(VoltRon)

exportClasses(vrAssay)

exportClasses(vrAssayV2)

exportClasses(vrBlock)

exportClasses(vrImage)

exportClasses(vrLayer)

exportClasses(vrMetadata)

exportClasses(vrSample)

exportClasses(vrSpatial)

exportMethods("Metadata<-")

exportMethods("[[")

exportMethods("[[<-")

exportMethods("vrCoordinates<-")

exportMethods("vrEmbeddings<-")

exportMethods("vrFeatureData<-")

exportMethods("vrImages<-")

exportMethods("vrMainAssay<-")

exportMethods("vrMainChannel<-")

exportMethods("vrMainFeatureType<-")

exportMethods("vrMainImage<-")

exportMethods("vrMainSpatial<-")

exportMethods("vrSegments<-")

exportMethods("vrSpatialPoints<-")

exportMethods(Metadata)

exportMethods(addAssay)

exportMethods(addFeature)

exportMethods(combineChannels)

exportMethods(flipCoordinates)

exportMethods(generateTileData)

exportMethods(getFeatures)

exportMethods(merge)

exportMethods(modulateImage)

exportMethods(normalizeData)

exportMethods(resizeImage)

exportMethods(subset)

exportMethods(updateAssay)

exportMethods(vrAssayNames)

exportMethods(vrAssayTypes)

exportMethods(vrCoordinates)

exportMethods(vrData)

exportMethods(vrEmbeddingNames)

exportMethods(vrEmbeddings)

exportMethods(vrFeatureData)

exportMethods(vrFeatureTypeNames)

exportMethods(vrFeatures)

exportMethods(vrImageChannelNames)

exportMethods(vrImageNames)

exportMethods(vrImages)

exportMethods(vrMainAssay)

exportMethods(vrMainChannel)

exportMethods(vrMainFeatureType)

exportMethods(vrMainImage)

exportMethods(vrMainSpatial)

exportMethods(vrSampleNames)

exportMethods(vrSegments)

exportMethods(vrSpatialNames)

exportMethods(vrSpatialPoints)

import(ggplot2)

import(shiny)

importClassesFrom(Matrix,dgCMatrix)

importClassesFrom(Matrix,dgRMatrix)

importClassesFrom(Matrix,dgeMatrix)

importClassesFrom(S4Arrays,Array)

importClassesFrom(data.table,data.table)

importFrom(EBImage,as.Image)

importFrom(EBImage,writeImage)

importFrom(Matrix,Matrix)

importFrom(Matrix,colSums)

importFrom(Matrix,rowMeans)

importFrom(Matrix,rowSums)

importFrom(Matrix,sparseMatrix)

importFrom(Matrix,t)

importFrom(RANN,nn2)

importFrom(RCDT,delaunay)

importFrom(RcppAnnoy,AnnoyEuclidean)

importFrom(data.table,alloc.col)

importFrom(data.table,as.data.table)

importFrom(data.table,chmatch)

importFrom(data.table,data.table)

importFrom(data.table,fread)

importFrom(data.table,is.data.table)

importFrom(data.table,melt)

importFrom(data.table,set)

importFrom(data.table,setkey)

importFrom(dplyr,"%>%")

importFrom(dplyr,add_row)

importFrom(dplyr,arrange)

importFrom(dplyr,as_tibble)

importFrom(dplyr,bind_cols)

importFrom(dplyr,bind_rows)

importFrom(dplyr,coalesce)

importFrom(dplyr,desc)

importFrom(dplyr,distinct)

importFrom(dplyr,filter)

importFrom(dplyr,full_join)

importFrom(dplyr,group_by)

importFrom(dplyr,left_join)

importFrom(dplyr,mutate)

importFrom(dplyr,mutate_all)

importFrom(dplyr,n)

importFrom(dplyr,n_distinct)

importFrom(dplyr,right_join)

importFrom(dplyr,select)

importFrom(dplyr,summarize)

importFrom(dplyr,tibble)

importFrom(ggplot2,annotation_custom)

importFrom(ggplot2,annotation_raster)

importFrom(ggplot2,coord_fixed)

importFrom(ggplot2,geom_rect)

importFrom(ggplot2,ggplot)

importFrom(ggplot2,ggproto)

importFrom(ggplot2,xlim)

importFrom(ggplot2,ylim)

importFrom(ggpubr,ggarrange)

importFrom(ggrepel,geom_label_repel)

importFrom(grDevices,as.raster)

importFrom(grDevices,col2rgb)

importFrom(grDevices,hcl)

importFrom(grDevices,rgb)

importFrom(grDevices,rgb2hsv)

importFrom(grid,gpar)

importFrom(grid,pointsGrob)

importFrom(grid,rasterGrob)

importFrom(grid,unit)

importFrom(ids,random_id)

importFrom(igraph,"E<-")

importFrom(igraph,"V<-")

importFrom(igraph,E)

importFrom(igraph,V)

importFrom(igraph,add_edges)

importFrom(igraph,as_adjacency_matrix)

importFrom(igraph,as_data_frame)

importFrom(igraph,cluster_leiden)

importFrom(igraph,components)

importFrom(igraph,disjoint_union)

importFrom(igraph,edge_attr_names)

importFrom(igraph,get.data.frame)

importFrom(igraph,graph_from_adjacency_matrix)

importFrom(igraph,induced_subgraph)

importFrom(igraph,make_empty_graph)

importFrom(igraph,neighborhood)

importFrom(igraph,simplify)

importFrom(igraph,subgraph)

importFrom(igraph,union)

importFrom(igraph,vcount)

importFrom(igraph,vertices)

importFrom(irlba,irlba)

importFrom(magick,geometry_size_percent)

importFrom(magick,image_composite)

importFrom(magick,image_contrast)

importFrom(magick,image_crop)

importFrom(magick,image_data)

importFrom(magick,image_flip)

importFrom(magick,image_flop)

importFrom(magick,image_ggplot)

importFrom(magick,image_info)

importFrom(magick,image_join)

importFrom(magick,image_modulate)

importFrom(magick,image_negate)

importFrom(magick,image_raster)

importFrom(magick,image_read)

importFrom(magick,image_resize)

importFrom(magick,image_rotate)

importFrom(magick,image_scale)

importFrom(magick,image_write)

importFrom(methods,"slot<-")

importFrom(methods,as)

importFrom(methods,is)

importFrom(methods,new)

importFrom(methods,slot)

importFrom(methods,slotNames)

importFrom(rjson,fromJSON)

importFrom(rlang,"%||%")

importFrom(rlang,'!!')

importFrom(rlang,dots_list)

importFrom(rlang,enquo)

importFrom(rlang,eval_tidy)

importFrom(rlang,list2)

importFrom(rlang,quo_get_expr)

importFrom(rlang,quo_name)

importFrom(rlang,quo_text)

importFrom(rlang,sym)

importFrom(shiny,HTML)

importFrom(shiny,reactiveValuesToList)

importFrom(shiny,tags)

importFrom(shiny,validateCssUnit)

importFrom(shinyjs,hide)

importFrom(shinyjs,show)

importFrom(shinyjs,useShinyjs)

importFrom(sp,point.in.polygon)

importFrom(stats,aggregate)

importFrom(stats,as.formula)

importFrom(stats,dist)

importFrom(stats,kmeans)

importFrom(stats,loess)

importFrom(stats,median)

importFrom(stats,na.omit)

importFrom(stats,pnorm)

importFrom(stats,predict)

importFrom(stats,quantile)

importFrom(stats,setNames)

importFrom(stats,var)

importFrom(stringr,str_extract)

importFrom(stringr,str_order)

importFrom(stringr,str_remove)

importFrom(stringr,str_replace)

importFrom(stringr,str_sort)

importFrom(utils,.DollarNames)

importFrom(utils,capture.output)

importFrom(utils,head)

importFrom(utils,read.csv)

importFrom(utils,read.table)

importFrom(uwot,umap)

useDynLib(VoltRon)