
importFrom(grDevices, colors)
importFrom(utils, str, tail, write.table)
importFrom(reshape2, melt)
importFrom(Biobase, rowMedians)

import(stats)
import(methods)

importFrom(DOSE, enrichDO)
importFrom(ReactomePA, enrichPathway)
importFrom(clusterProfiler, enrichGO, compareCluster, bitr, dotplot)

importFrom(gridExtra, grid.arrange)
importFrom(grid, rasterGrob)
importFrom(grid, textGrob)
importFrom(grid, gpar)
importFrom(gridExtra, arrangeGrob)
importFrom(ape, as.phylo)
importFrom(ggtree, ggtree)
importFrom(ggtree, gheatmap)
importFrom(ggtree, geom_tiplab)
importFrom(png, readPNG)
importFrom(sva, svaseq)

importFrom(org.Hs.eg.db, org.Hs.eg.db)
importFrom(ggplot2, ggplot, geom_point, geom_histogram, geom_bar, geom_line, element_text, ggtitle, theme, aes, geom_boxplot, element_rect, element_blank, geom_freqpoly, ylim, xlim, scale_x_continuous, scale_y_continuous, element_line, geom_text, scale_colour_manual, scale_fill_manual, geom_vline, coord_flip, scale_x_reverse, scale_y_reverse, scale_fill_gradient2, guides)


export(linc)
export(justlinc)
export(clusterlinc)
export(singlelinc)
export(getbio)
export(getlinc)
export(plotlinc)
export(querycluster)
export(feature)
export(linctable)
export(getcoexpr)
export(changeOrgDb)
export(results)
export(correlation)
export(assignment)
export(express)
export(history)
export(linCenvir)


exportClass("LINCmatrix")
exportClass("LINCcluster")
exportClass("LINCbio")
exportClass("LINCsingle")
exportClass("LINCfeature")
importFrom(Rcpp, sourceCpp)
useDynLib(LINC, .registration = TRUE)






