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#' Disparity Filter
#'
#'
#' Uses the Serrano's disparity filter (\url{https://en.wikipedia.org/wiki/Disparity_filter_algorithm_of_weighted_network})
#' to extract the backbone of the network in "Extracting the multiscale backbone of complex weighted networks"
#'
#' @param g igraph object
#' @param alpha Alpha value. Default 0.003
#'
#' @examples
#' \dontrun{
#' netDir <- make.netDir(OD_Sample)
#' disparity_filter(netDir$gDir, alpha = 0.003)
#' }
#' @export
#'
disparity_filter <- function(g, alpha = 0.003){
if (igraph::has.multiple(g))
stop("This disparity filter does not support yet multiple edges")
if (is.null(V(g)$name)){
g <- set_vertex_attr(g, "name", value = as.character(1:vcount(g)))
}
e <- cbind(igraph::as_data_frame(g)[, 1:2 ], weight = E(g)$weight)
# in
w_in <- graph.strength(g, mode = "in")
w_in <- data.frame(to = names(w_in), w_in, stringsAsFactors = FALSE)
k_in <- degree(g, mode = "in")
k_in <- data.frame(to = names(k_in), k_in, stringsAsFactors = FALSE)
e_in <- e %>%
left_join(w_in, by = "to") %>%
left_join(k_in, by = "to") %>%
mutate(alpha_in = (1-(weight/w_in))^(k_in-1))
# out
w_out <- graph.strength(g, mode = "out")
w_out <- data.frame(from = names(w_out), w_out, stringsAsFactors = FALSE)
k_out <- degree(g, mode = "out")
k_out <- data.frame(from = names(k_out), k_out, stringsAsFactors = FALSE)
e_out <- e %>%
left_join(w_out, by = "from") %>%
left_join(k_out, by = "from") %>%
mutate(alpha_out = (1-(weight/w_out))^(k_out-1))
e_full <- left_join(e_in, e_out, by = c("from", "to", "weight"))
e_full <- e_full %>%
mutate(alpha = ifelse(alpha_in < alpha_out, alpha_in, alpha_out)) %>%
select(from, to, alpha)
E(g)$alpha <- e_full$alpha
g <- delete.edges(g, which(E(g)$alpha >= alpha))
g <- delete.vertices(g, which(degree(g) == 0))
return(g)
}
dispfilter <- function(...){
warning(paste("dispfilter is deprecated, use disparity_filter(), instead."))
do.call(disparity_filter, list(...))
}
globalVariables(c("weight", "alpha_in", "alpha_out", "from", "to"))
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