# Generated by roxygen2: do not edit by hand

export(as_path2path_matrix)
export(as_path2path_se)
export(bh_populated)
export(build_null_pool)
export(calibrate_pvalues)
export(dataset_tag)
export(jaccard_mask)
export(load_pathways)
export(order_by_activity)
export(path2path)
export(pathway_jaccard)
export(permute_input)
export(plot_calibration)
export(plot_entry)
export(plot_map)
export(read_input_matrix)
export(select_active)
export(stage1_nes)
export(stage2_matrix)
export(write_result)
importFrom(BiocParallel,
  MulticoreParam,
  SerialParam,
  bplapply,
  bpparam
)
importFrom(data.table,
  as.data.table,
  data.table,
  fread,
  fwrite
)
importFrom(fgsea,
  calcGseaStat,
  fgseaMultilevel,
  fgseaSimple,
  plotEnrichment
)
importFrom(grDevices,colorRampPalette)
importFrom(graphics,
  abline,
  axis,
  box,
  image,
  layout,
  legend,
  lines,
  mtext,
  par,
  plot,
  points,
  rect
)
importFrom(methods,is)
importFrom(msigdbr,msigdbr)
importFrom(stats,
  dist,
  hclust,
  median,
  optim,
  p.adjust,
  quantile,
  sd,
  setNames
)
importFrom(utils,
  head,
  modifyList,
  write.table
)
importFrom(withr,with_seed)
