# Generated by roxygen2: do not edit by hand

export(.cluster_markov)
export(.map_to_color)
export(GeDi)
export(buildClusterGraph)
export(buildGraph)
export(buildHistogramData)
export(checkInclusion)
export(clustering)
export(distanceDendro)
export(distanceHeatmap)
export(enrichmentWordcloud)
export(fuzzyClustering)
export(getAdjacencyMatrix)
export(getAnnotation)
export(getBipartiteGraph)
export(getClusterAdjacencyMatrix)
export(getGenes)
export(getGraphTitle)
export(getId)
export(getInteractionScore)
export(getJaccardMatrix)
export(getKappaMatrix)
export(getMeetMinMatrix)
export(getPPI)
export(getSorensenDiceMatrix)
export(getStringDB)
export(getpMMMatrix)
export(goDistance)
export(gsHistogram)
export(kMeansClustering)
export(kNN_clustering)
export(louvainClustering)
export(markovClustering)
export(pMMlocal)
export(pamClustering)
export(path_to_GeDi)
export(prepareGenesetData)
export(seedFinding)
import(Matrix)
import(STRINGdb)
import(fontawesome)
import(ggplot2)
import(igraph)
import(shiny)
import(shinyBS)
import(visNetwork)
importFrom(BiocFileCache,
  BiocFileCache,
  bfcadd,
  bfccount,
  bfcdownload,
  bfcneedsupdate,
  bfcquery
)
importFrom(BiocNeighbors,findKNN)
importFrom(BiocParallel,
  SerialParam,
  bplapply
)
importFrom(ComplexHeatmap,Heatmap)
importFrom(Matrix,Matrix)
importFrom(RColorBrewer,brewer.pal)
importFrom(bs4Dash,
  box,
  bs4Card,
  bs4DashBody,
  bs4DashBrand,
  bs4DashControlbar,
  bs4DashFooter,
  bs4DashNavbar,
  bs4DashPage,
  bs4DashSidebar,
  bs4SidebarMenu,
  bs4SidebarMenuItem,
  bs4TabItem,
  bs4TabItems,
  renderbs4InfoBox,
  updateBox
)
importFrom(circlize,colorRamp2)
importFrom(cluster,pam)
importFrom(dplyr,distinct)
importFrom(expm,"%^%")
importFrom(ggdendro,ggdendrogram)
importFrom(grDevices,colorRampPalette)
importFrom(igraph,
  E,
  V,
  cluster_louvain,
  degree,
  delete_vertices,
  get.edgelist,
  graph_from_adjacency_matrix,
  make_bipartite_graph,
  membership,
  set_vertex_attr
)
importFrom(methods,
  as,
  is
)
importFrom(parallel,mclapply)
importFrom(plotly,
  plotlyOutput,
  renderPlotly
)
importFrom(proxyC,simil)
importFrom(rintrojs,introjs)
importFrom(shinyWidgets,materialSwitch)
importFrom(shinycssloaders,withSpinner)
importFrom(simona,
  create_ontology_DAG_from_GO_db,
  dag_has_terms,
  term_sim
)
importFrom(stats,
  dist,
  hclust,
  kmeans,
  na.omit,
  quantile
)
importFrom(tm,
  TermDocumentMatrix,
  VCorpus,
  VectorSource,
  removePunctuation,
  removeWords,
  stopwords,
  stripWhitespace,
  tm_map
)
importFrom(tools,R_user_dir)
importFrom(utils,
  data,
  read.delim
)
importFrom(wordcloud2,wordcloud2)
