File: NAMESPACE

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r-bioc-destiny 3.4.0-1
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# Generated by roxygen2: do not edit by hand

export("dataset<-")
export("distance<-")
export("eigenvalues<-")
export("eigenvectors<-")
export("sigmas<-")
export(DPT)
export(DiffusionMap)
export(DiffusionMapCompat)
export(Sigmas)
export(as.ExpressionSet)
export(branch_divide)
export(colorlegend)
export(cube.helix)
export(cube_helix)
export(dataset)
export(distance)
export(dm.predict)
export(dm_predict)
export(eig.decomp)
export(eig_decomp)
export(eigenvalues)
export(eigenvectors)
export(find.dm.k)
export(find.sigmas)
export(find_dm_k)
export(find_knn)
export(find_sigmas)
export(find_tips)
export(fortify.DPT)
export(fortify.DiffusionMap)
export(gene_relevance)
export(lWhich)
export(l_which)
export(optimal.sigma)
export(optimal_sigma)
export(plot.DPT)
export(plot.DiffusionMap)
export(plot_differential_map)
export(plot_gene_relevance)
export(plot_gene_relevance_rank)
export(plot_gradient_map)
export(projection_dist)
export(random_root)
export(read.ExpressionSet)
export(scale_color_cube_helix)
export(scale_colour_cube_helix)
export(scale_fill_cube_helix)
export(sigmas)
export(tips)
exportClasses(DPT)
exportClasses(DiffusionMap)
exportClasses(GeneRelevance)
exportClasses(Sigmas)
exportMethods("$")
exportMethods("[")
exportMethods("[[")
exportMethods("dataset<-")
exportMethods("distance<-")
exportMethods("eigenvalues<-")
exportMethods("eigenvectors<-")
exportMethods("featureNames<-")
exportMethods("sigmas<-")
exportMethods(as.ExpressionSet)
exportMethods(as.data.frame)
exportMethods(as.matrix)
exportMethods(dataset)
exportMethods(dim)
exportMethods(distance)
exportMethods(eigenvalues)
exportMethods(eigenvectors)
exportMethods(featureNames)
exportMethods(gene_relevance)
exportMethods(names)
exportMethods(ncol)
exportMethods(nrow)
exportMethods(optimal_sigma)
exportMethods(plot)
exportMethods(plot_differential_map)
exportMethods(plot_gene_relevance)
exportMethods(plot_gene_relevance_rank)
exportMethods(print)
exportMethods(show)
exportMethods(sigmas)
exportMethods(updateObject)
importClassesFrom(Matrix,BunchKaufman)
importClassesFrom(Matrix,Cholesky)
importClassesFrom(Matrix,corMatrix)
importClassesFrom(Matrix,dMatrix)
importClassesFrom(Matrix,ddenseMatrix)
importClassesFrom(Matrix,ddiMatrix)
importClassesFrom(Matrix,dgeMatrix)
importClassesFrom(Matrix,dpoMatrix)
importClassesFrom(Matrix,dppMatrix)
importClassesFrom(Matrix,dspMatrix)
importClassesFrom(Matrix,dsparseMatrix)
importClassesFrom(Matrix,dsyMatrix)
importClassesFrom(Matrix,dtpMatrix)
importClassesFrom(Matrix,dtrMatrix)
importClassesFrom(Matrix,pBunchKaufman)
importClassesFrom(Matrix,pCholesky)
importFrom(Biobase,"featureNames<-")
importFrom(Biobase,AnnotatedDataFrame)
importFrom(Biobase,ExpressionSet)
importFrom(Biobase,as.data.frame.ExpressionSet)
importFrom(Biobase,exprs)
importFrom(Biobase,featureNames)
importFrom(Biobase,pData)
importFrom(Biobase,phenoData)
importFrom(Biobase,rowMedians)
importFrom(Biobase,sampleNames)
importFrom(Biobase,updateObject)
importFrom(Biobase,varLabels)
importFrom(BiocGenerics,as.data.frame)
importFrom(BiocGenerics,duplicated)
importFrom(BiocGenerics,ncol)
importFrom(BiocGenerics,nrow)
importFrom(BiocGenerics,updateObject)
importFrom(Matrix,"diag<-")
importFrom(Matrix,Diagonal)
importFrom(Matrix,Matrix)
importFrom(Matrix,colSums)
importFrom(Matrix,drop0)
importFrom(Matrix,forceSymmetric)
importFrom(Matrix,isSymmetric)
importFrom(Matrix,nnzero)
importFrom(Matrix,rowSums)
importFrom(Matrix,skewpart)
importFrom(Matrix,sparseMatrix)
importFrom(Matrix,symmpart)
importFrom(Matrix,t)
importFrom(Matrix,tcrossprod)
importFrom(Matrix,which)
importFrom(RSpectra,eigs)
importFrom(RSpectra,eigs_sym)
importFrom(Rcpp,evalCpp)
importFrom(RcppEigen,RcppEigen.package.skeleton)
importFrom(RcppHNSW,hnsw_build)
importFrom(RcppHNSW,hnsw_knn)
importFrom(RcppHNSW,hnsw_search)
importFrom(SingleCellExperiment,"reducedDim<-")
importFrom(SingleCellExperiment,reducedDim)
importFrom(SingleCellExperiment,reducedDimNames)
importFrom(SummarizedExperiment,assay)
importFrom(SummarizedExperiment,colData)
importFrom(VIM,hotdeck)
importFrom(ggplot.multistats,stat_summaries_hex)
importFrom(ggplot2,aes)
importFrom(ggplot2,aes_string)
importFrom(ggplot2,element_blank)
importFrom(ggplot2,element_line)
importFrom(ggplot2,element_rect)
importFrom(ggplot2,element_text)
importFrom(ggplot2,facet_wrap)
importFrom(ggplot2,geom_path)
importFrom(ggplot2,geom_point)
importFrom(ggplot2,geom_spoke)
importFrom(ggplot2,ggplot)
importFrom(ggplot2,ggtitle)
importFrom(ggplot2,guide_colourbar)
importFrom(ggplot2,guide_legend)
importFrom(ggplot2,scale_alpha_continuous)
importFrom(ggplot2,scale_color_manual)
importFrom(ggplot2,scale_colour_gradientn)
importFrom(ggplot2,scale_colour_identity)
importFrom(ggplot2,scale_fill_gradientn)
importFrom(ggplot2,scale_fill_identity)
importFrom(ggplot2,scale_fill_manual)
importFrom(ggplot2,scale_x_continuous)
importFrom(ggplot2,scale_y_continuous)
importFrom(ggplot2,stat)
importFrom(ggplot2,theme)
importFrom(ggplot2,theme_minimal)
importFrom(ggthemes,extended_range_breaks)
importFrom(ggthemes,geom_rangeframe)
importFrom(grDevices,colorRampPalette)
importFrom(grDevices,palette)
importFrom(grDevices,rgb)
importFrom(graphics,axis)
importFrom(graphics,dotchart)
importFrom(graphics,layout)
importFrom(graphics,par)
importFrom(graphics,plot)
importFrom(graphics,plot.new)
importFrom(graphics,plot.window)
importFrom(graphics,points)
importFrom(graphics,rect)
importFrom(graphics,segments)
importFrom(graphics,text)
importFrom(grid,arrow)
importFrom(grid,unit)
importFrom(irlba,prcomp_irlba)
importFrom(methods,"slot<-")
importFrom(methods,.hasSlot)
importFrom(methods,.valueClassTest)
importFrom(methods,as)
importFrom(methods,canCoerce)
importFrom(methods,hasMethod)
importFrom(methods,is)
importFrom(methods,new)
importFrom(methods,setAs)
importFrom(methods,setClass)
importFrom(methods,setClassUnion)
importFrom(methods,setGeneric)
importFrom(methods,setMethod)
importFrom(methods,setOldClass)
importFrom(methods,show)
importFrom(methods,slot)
importFrom(methods,validObject)
importFrom(pcaMethods,pca)
importFrom(pcaMethods,scores)
importFrom(proxy,dist)
importFrom(proxy,pr_DB)
importFrom(scales,colour_ramp)
importFrom(scales,percent)
importFrom(scales,rescale)
importFrom(scatterplot3d,scatterplot3d)
importFrom(smoother,smth.gaussian)
importFrom(stats,na.omit)
importFrom(stats,runif)
importFrom(stats,setNames)
importFrom(tidyr,gather)
importFrom(tidyselect,one_of)
importFrom(utils,capture.output)
importFrom(utils,combn)
importFrom(utils,flush.console)
importFrom(utils,getFromNamespace)
importFrom(utils,getS3method)
importFrom(utils,head)
importFrom(utils,read.table)
importFrom(utils,setTxtProgressBar)
importFrom(utils,str)
importFrom(utils,txtProgressBar)
importMethodsFrom(Matrix,solve)
useDynLib(destiny)