NAMESPACE

# Generated by roxygen2: do not edit by hand

export(Read10X)
export(classify.cells)
export(clustcells)
export(clustcellsBYscGSEA)
export(computePCADim)
export(ensToSymbol)
export(filterCells)
export(findClusterMarkers)
export(gficf)
export(loadGFICF)
export(plotCells)
export(plotGSEA)
export(plotGSVA)
export(plotGeneViolin)
export(plotGenes)
export(plotPathway)
export(resetScGSEA)
export(runGSEA)
export(runHarmony)
export(runNMF)
export(runPCA)
export(runReduction)
export(runScGSEA)
export(saveGFICF)
export(scMAP)
export(symbolToEns)
import(AnnotationHub)
import(GSVA)
import(Matrix)
import(RcppML)
import(ensembldb)
import(fastmatch)
import(ggplot2)
import(ggrepel)
import(mgcv)
import(msigdbr)
import(pointr)
import(utils)
import(uwot)
importFrom(BiocParallel,SnowParam)
importFrom(KernelKnn,KernelKnn)
importFrom(MASS,fitdistr)
importFrom(Matrix,readMM)
importFrom(RSpectra,svds)
importFrom(RcppML,nmf)
importFrom(RcppParallel,RcppParallelLibs)
importFrom(RcppParallel,setThreadOptions)
importFrom(Rtsne,Rtsne)
importFrom(babelgene,orthologs)
importFrom(edgeR,DGEList)
importFrom(edgeR,calcNormFactors)
importFrom(edgeR,cpm)
importFrom(fgsea,fgsea)
importFrom(harmony,HarmonyMatrix)
importFrom(igraph,as_adj)
importFrom(igraph,cluster_louvain)
importFrom(igraph,fastgreedy.community)
importFrom(igraph,graph.adjacency)
importFrom(igraph,graph.data.frame)
importFrom(igraph,membership)
importFrom(igraph,simplify)
importFrom(igraph,walktrap.community)
importFrom(irlba,irlba)
importFrom(leiden,leiden)
importFrom(limma,eBayes)
importFrom(limma,lmFit)
importFrom(limma,topTable)
importFrom(locfit,locfit)
importFrom(locfit,locfit.robust)
importFrom(locfit,lp)
importFrom(mgcv,gam)
importFrom(reshape2,acast)
importFrom(reshape2,melt)
importFrom(reticulate,py_module_available)
importFrom(sva,ComBat_seq)
importFrom(utils,read.delim)
importFrom(utils,read.table)
importFrom(utils,write.table)
useDynLib(gficf, .registration = TRUE)