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# SEMgraph library
# Copyright (C) 2019-2021 Mario Grassi; Fernando Palluzzi; Barbara Tarantino
# e-mail: <mario.grassi@unipv.it>
# University of Pavia, Department of Brain and Behavioral Sciences
# Via Bassi 21, 27100 Pavia, Italy
# SEMgraph is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later version.
# SEMgraph is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
# GNU General Public License for more details.
# You should have received a copy of the GNU General Public License
# along with this program. If not, see <https://www.gnu.org/licenses/>.
# -------------------------------------------------------------------- #
#' @title KEGG interactome
#'
#' @description Interactome generated by merging KEGG pathways
#' extracted using the \code{ROntoTools} R package (update: November, 2021).
#' @name kegg
#' @usage kegg
#' @docType data
#' @format
#' "kegg" is an igraph network object of 5143 nodes and 43734 edges
#' (40424 directed and 3310/2 = 1655 bidirected) corresponding to the
#' union of 227 KEGG pathways.
#' @source \url{https://www.genome.jp/kegg/}
#' @references
#'
#' Kanehisa M, Goto S (1999). KEGG: kyoto encyclopedia of genes and genomes.
#' Nucleic Acid Research 28(1): 27-30.
#' <https://doi.org/10.1093/nar/27.1.29>
#'
#' Calin Voichita, Sahar Ansari and Sorin Draghici (2023).
#' ROntoTools: R Onto-Tools suite. R package version 2.30.0.
#'
#' @examples
#'
#' # KEGG graph
#' summary(kegg)
#'
#' # KEGG degrees of freedom
#' vcount(kegg)*(vcount(kegg) - 1)/2 - ecount(kegg)
#'
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