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NAMESPACE
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NAMESPACE
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# Generated by roxygen2: do not edit by hand
S3method(as.data.frame,SegmentedCells)
export("cellAnnotation<-")
export("cellID<-")
export("cellMarks<-")
export("cellMorph<-")
export("cellSummary<-")
export("cellType<-")
export("imageCellID<-")
export("imagePheno<-")
export(SegmentedCells)
export(cellAnnotation)
export(cellID)
export(cellMarks)
export(cellMorph)
export(cellSummary)
export(cellType)
export(colTest)
export(filterCells)
export(getPairwise)
export(getProp)
export(imageCellID)
export(imageID)
export(imagePheno)
export(signifPlot)
export(spicy)
export(topPairs)
exportClasses(SegmentedCells)
exportClasses(SpicyResults)
exportMethods(plot)
importClassesFrom(S4Vectors,DFrame)
importFrom(BiocGenerics,do.call)
importFrom(BiocGenerics,rbind)
importFrom(BiocParallel,SerialParam)
importFrom(BiocParallel,bplapply)
importFrom(BiocParallel,bpmapply)
importFrom(IRanges,SplitDataFrameList)
importFrom(S4Vectors,DataFrame)
importFrom(S4Vectors,as.data.frame)
importFrom(S4Vectors,split)
importFrom(SingleCellExperiment,SingleCellExperiment)
importFrom(SpatialExperiment,spatialCoords)
importFrom(SummarizedExperiment,colData)
importFrom(concaveman,concaveman)
importFrom(data.table,":=")
importFrom(data.table,.SD)
importFrom(data.table,CJ)
importFrom(data.table,as.data.table)
importFrom(data.table,setkey)
importFrom(dplyr,bind_rows)
importFrom(dplyr,left_join)
importFrom(ggforce,geom_arc_bar)
importFrom(ggforce,geom_circle)
importFrom(ggplot2,aes)
importFrom(ggplot2,element_blank)
importFrom(ggplot2,element_text)
importFrom(ggplot2,geom_point)
importFrom(ggplot2,ggplot)
importFrom(ggplot2,guide_colourbar)
importFrom(ggplot2,guide_legend)
importFrom(ggplot2,guides)
importFrom(ggplot2,labs)
importFrom(ggplot2,scale_color_manual)
importFrom(ggplot2,scale_colour_gradient2)
importFrom(ggplot2,scale_shape_manual)
importFrom(ggplot2,theme)
importFrom(ggplot2,theme_classic)
importFrom(grDevices,colorRampPalette)
importFrom(grDevices,colors)
importFrom(lme4,fixef)
importFrom(lme4,lmerControl)
importFrom(lmerTest,lmer)
importFrom(methods,"slot<-")
importFrom(methods,is)
importFrom(methods,new)
importFrom(methods,slot)
importFrom(mgcv,gam)
importFrom(mgcv,ti)
importFrom(pheatmap,pheatmap)
importFrom(rlang,.data)
importFrom(scam,scam)
importFrom(spatstat.explore,Lcross)
importFrom(spatstat.explore,density.ppp)
importFrom(spatstat.geom,area)
importFrom(spatstat.geom,border)
importFrom(spatstat.geom,closepairs)
importFrom(spatstat.geom,convexhull)
importFrom(spatstat.geom,discs)
importFrom(spatstat.geom,inside.owin)
importFrom(spatstat.geom,intersect.owin)
importFrom(spatstat.geom,nearest.valid.pixel)
importFrom(spatstat.geom,owin)
importFrom(spatstat.geom,ppp)
importFrom(spatstat.geom,solapply)
importFrom(spatstat.geom,union.owin)
importFrom(stats,coef)
importFrom(stats,formula)
importFrom(stats,lm)
importFrom(stats,p.adjust)
importFrom(stats,predict)
importFrom(stats,quantile)
importFrom(stats,sd)
importFrom(stats,t.test)
importFrom(stats,weights)
importFrom(stats,wilcox.test)
importFrom(tidyr,pivot_longer)