# Generated by roxygen2: do not edit by hand

export(calculate_metabolite_centrality)
export(create_centrality_plot)
export(create_enrichment_plot)
export(create_gsea_plot)
export(create_heatmap_plot)
export(create_impact_plot)
export(create_interaction_plot)
export(create_membership_plot)
export(create_network_plot)
export(da_results_from_se)
export(enrichmet)
export(extract_kegg_ids)
export(extract_measured_kegg_ids)
export(fetch_kegg_chebi)
export(fetch_kegg_compound_lookup)
export(fetch_kegg_pathway_metabolites)
export(fetch_kegg_reactome)
export(fetch_lion_lipid_ontology)
export(fetch_reactome_reactions)
export(get_cached_file)
export(perform_enrichment_analysis)
export(perform_enrichment_analysis_bg)
export(perform_gsea_analysis)
export(prepare_gmt_data)
export(run_de)
import(dplyr)
import(tidyr)
importFrom(ComplexHeatmap,Heatmap)
importFrom(SummarizedExperiment,
  SummarizedExperiment,
  rowData
)
importFrom(circlize,colorRamp2)
importFrom(dplyr,
  arrange,
  distinct,
  everything,
  filter,
  group_by,
  left_join,
  mutate,
  n_distinct,
  rename,
  select,
  summarise
)
importFrom(ggplot2,
  aes,
  coord_flip,
  element_rect,
  element_text,
  geom_col,
  geom_hline,
  geom_point,
  geom_vline,
  ggplot,
  ggtitle,
  labs,
  scale_color_gradient2,
  scale_size_continuous,
  scale_y_continuous,
  theme,
  theme_bw,
  theme_minimal,
  xlab,
  ylab
)
importFrom(ggraph,
  create_layout,
  geom_edge_link,
  geom_node_point,
  geom_node_text,
  ggraph,
  scale_edge_width,
  theme_graph
)
importFrom(ggrepel,geom_text_repel)
importFrom(grid,
  gpar,
  unit
)
importFrom(igraph,
  betweenness,
  components,
  degree,
  ecount,
  graph.adjacency,
  graph_from_data_frame,
  vcount
)
importFrom(limma,
  contrasts.fit,
  eBayes,
  lmFit,
  makeContrasts,
  topTable
)
importFrom(methods,is)
importFrom(scales,rescale)
importFrom(stats,
  aggregate,
  fisher.test,
  p.adjust,
  reorder
)
importFrom(stringr,
  str_pad,
  str_trunc
)
importFrom(tibble,as_tibble)
importFrom(tidyr,
  separate_rows,
  unnest
)
importFrom(utils,
  combn,
  head,
  read.delim
)
