export("adjacencyMatrix")
export("clustering")
export("geneOntology")
export("semiLabeling")
export("semiSupervised")
export("ezSGCP")
export("SGCP_ezPLOT")
export("SGCP_plot_pca")
export("SGCP_plot_heatMap")
export("SGCP_plot_silhouette")
export("SGCP_plot_conductance")
export("SGCP_plot_jitter")
export("SGCP_plot_density")
export("SGCP_plot_bar")
export("SGCP_plot_pie")
export("SGCP_plot_silhouette")

import("org.Hs.eg.db")
import("ggplot2")
import("expm")
import("dplyr")
import("GO.db")
import(annotate, except=c(toFile))
import("genefilter")
import("GOstats")
import("RColorBrewer")
import("xtable")
import("Rgraphviz")
import("ggridges")

importFrom(GOstats, hyperGTest)
importFrom(GOstats, goDag)

importFrom(graph, nodeData)

importFrom(openxlsx, createWorkbook)
importFrom(openxlsx, addWorksheet)
importFrom(openxlsx, insertPlot)
importFrom(openxlsx, saveWorkbook)

importFrom(reshape2, melt)

importFrom(DescTools, MeanCI)

importFrom(SummarizedExperiment, assay)
importFrom(SummarizedExperiment, rowData)

importFrom(plyr, rbind.fill)
importFrom(plyr, join_all)
importFrom(plyr, rbind.fill.matrix)
importFrom(RSpectra, eigs_sym)
importFrom(RSpectra, eigs)
importFrom(caret, train)

importFrom("grDevices", "dev.off", "graphics.off", "jpeg", "pdf", "recordPlot", "replayPlot")
importFrom("methods", "new")
importFrom("stats", "aggregate", "complete.cases", "dist", "kmeans", "median", "prcomp", "predict", "quantile", "sd", "setNames", "var")