125 lines (123 with data), 3.4 kB

# Generated by roxygen2: do not edit by hand

export(ExpMean)
export(LogVMR)
export(VscAIplot)
export(addpData)
export(as_matrix)
export(cellVisualization)
export(clust2Mat)
export(create_scAIobject)
export(featureHeatmap)
export(featureRankingPlot)
export(featureScoreVisualization)
export(featureVisualization)
export(findNearbyLoci)
export(getAggregatedData)
export(getEmbeddings)
export(identifyClusterMarkers)
export(identifyClusters)
export(identifyFactorMarkers)
export(inferRegulations)
export(lmHeatmap)
export(preprocessing)
export(reducedDims)
export(reorderFeatures)
export(runLeiden)
export(runPCA)
export(runUMAP)
export(run_scAI)
export(scAI_theme_opts)
export(scAImodel)
export(scPalette)
export(searchGeneRegions)
export(selectFeatures)
export(selectK)
exportClasses(scAI)
importFrom(ComplexHeatmap,Heatmap)
importFrom(ComplexHeatmap,HeatmapAnnotation)
importFrom(ComplexHeatmap,draw)
importFrom(Matrix,Matrix)
importFrom(RColorBrewer,brewer.pal)
importFrom(Rcpp,evalCpp)
importFrom(Rtsne,Rtsne)
importFrom(bedr,bedr.sort.region)
importFrom(bedr,in.region)
importFrom(biomaRt,getBM)
importFrom(biomaRt,useMart)
importFrom(circlize,colorRamp2)
importFrom(doParallel,registerDoParallel)
importFrom(dplyr,"%>%")
importFrom(dplyr,slice)
importFrom(dplyr,summarize)
importFrom(dplyr,top_n)
importFrom(foreach,"%dopar%")
importFrom(foreach,foreach)
importFrom(future,nbrOfWorkers)
importFrom(future.apply,future_sapply)
importFrom(ggplot2,aes)
importFrom(ggplot2,element_blank)
importFrom(ggplot2,element_line)
importFrom(ggplot2,element_rect)
importFrom(ggplot2,element_text)
importFrom(ggplot2,facet_wrap)
importFrom(ggplot2,geom_line)
importFrom(ggplot2,geom_point)
importFrom(ggplot2,ggplot)
importFrom(ggplot2,guide_colorbar)
importFrom(ggplot2,guide_legend)
importFrom(ggplot2,guides)
importFrom(ggplot2,labs)
importFrom(ggplot2,scale_color_distiller)
importFrom(ggplot2,scale_color_manual)
importFrom(ggplot2,scale_colour_gradientn)
importFrom(ggplot2,scale_fill_manual)
importFrom(ggplot2,scale_shape_manual)
importFrom(ggplot2,scale_size_manual)
importFrom(ggplot2,theme)
importFrom(ggplot2,theme_classic)
importFrom(ggplot2,xlab)
importFrom(ggplot2,ylab)
importFrom(ggrepel,geom_text_repel)
importFrom(grDevices,colorRampPalette)
importFrom(graphics,smoothScatter)
importFrom(graphics,text)
importFrom(grid,gpar)
importFrom(grid,grid.draw)
importFrom(grid,grid.grabExpr)
importFrom(grid,grid.newpage)
importFrom(grid,popViewport)
importFrom(grid,pushViewport)
importFrom(grid,unit)
importFrom(grid,viewport)
importFrom(irlba,irlba)
importFrom(methods,as)
importFrom(methods,new)
importFrom(methods,setClass)
importFrom(parallel,detectCores)
importFrom(parallel,makeCluster)
importFrom(parallel,makeForkCluster)
importFrom(pbapply,pbsapply)
importFrom(reticulate,import)
importFrom(reticulate,py_module_available)
importFrom(reticulate,py_set_seed)
importFrom(reticulate,r_to_py)
importFrom(reticulate,source_python)
importFrom(rfunctions,crossprodcpp)
importFrom(stats,as.dist)
importFrom(stats,cophenetic)
importFrom(stats,cor)
importFrom(stats,cutree)
importFrom(stats,dist)
importFrom(stats,dnorm)
importFrom(stats,hclust)
importFrom(stats,median)
importFrom(stats,p.adjust)
importFrom(stats,pchisq)
importFrom(stats,prcomp)
importFrom(stats,rbinom)
importFrom(stats,runif)
importFrom(stats,sd)
importFrom(stats,setNames)
importFrom(stats,var)
importFrom(stats,wilcox.test)
useDynLib(scAI)