Dear R-Help community,
This is a crosspost on SO but I've had no luck so far. So I have a
function
which computes a centrality index for the nodes in a network or matrix.
Here is the function:
library(igraph) #load package igraph
centrality <- function (networks, type = c("indegree", "outdegree",
"freeman",
"betweenness", "flow", "closeness", "eigenvector", "information",
"load", "bonpow"), directed = TRUE, lag = 0, rescale = FALSE,
center = FALSE, coefname = NULL, ...) {
if (is.null(directed) || !is.logical(directed)) {
stop("'directed' must be TRUE or FALSE.")
}
else if (length(directed) != 1) {
stop("The 'directed' argument must contain a single logical
value only.")
}
else if (directed == FALSE) {
gmode <- "graph"
}
else {
gmode <- "digraph"
}
objects <- checkDataTypes(y = NULL, networks = networks,
lag = lag)
centlist <- list()
for (i in 1:objects$time.steps) {
if (type[1] == "indegree") {
cent <- degree(objects$networks[[i]], gmode = gmode,
cmode = "indegree", rescale = rescale, ...)
}
else if (type[1] == "outdegree") {
cent <- degree(objects$networks[[i]], gmode = gmode,
cmode = "outdegree", rescale = rescale, ...)
}
else if (type[1] == "freeman") {
cent <- degree(objects$networks[[i]], gmode = gmode,
cmode = "freeman", rescale = rescale, ...)
}
else if (type[1] == "betweenness") {
cent <- betweenness(objects$networks[[i]], gmode = gmode,
rescale = rescale, ...)
}
else if (type[1] == "flow") {
cent <- flowbet(objects$networks[[i]], gmode = gmode,
rescale = rescale, ...)
}
else if (type[1] == "closeness") {
cent <- closeness(objects$networks[[i]], gmode = gmode,
rescale = rescale, ...)
}
else if (type[1] == "eigenvector") {
cent <- evcent(objects$networks[[i]], gmode = gmode,
rescale = rescale, ...)
}
else if (type[1] == "information") {
cent <- infocent(objects$networks[[i]], gmode = gmode,
rescale = rescale, ...)
}
else if (type[1] == "load") {
cent <- loadcent(objects$networks[[i]], gmode = gmode,
rescale = rescale, ...)
}
else if (type[1] == "bonpow") {
cent <- bonpow(objects$networks[[i]], gmode = gmode,
rescale = rescale, tol = 1e-20, ...)
}
else {
stop("'type' argument was not recognized.")
}
centlist[[i]] <- cent
}
time <- numeric()
y <- numeric()
for (i in 1:objects$time.steps) {
time <- c(time, rep(i, objects$n[[i]]))
if (is.null(centlist[[i]])) {
y <- c(y, rep(NA, objects$n[[i]]))
}
else {
if (center == TRUE) {
centlist[[i]] <- centlist[[i]] - mean(centlist[[i]],
na.rm = TRUE)
}
y <- c(y, centlist[[i]])
}
}
if (is.null(coefname) || !is.character(coefname) ||
length(coefname) >
1) {
coeflabel <- ""
}
else {
coeflabel <- paste0(".", coefname)
}
if (lag == 0) {
laglabel <- ""
}
else {
laglabel <- paste0(".lag", paste(lag, collapse = "."))
}
label <- paste0(type[1], coeflabel, laglabel)
dat <- data.frame(y, time = time, node = objects$nodelabels)
dat$node <- as.character(dat$node)
colnames(dat)[1] <- label
attributes(dat)$lag <- lag
return(dat)}
Here is the matrix:
dat <- read.table(text="A B #this is edgelist
1 2
1 3
1 2
2 1
2 3
3 1
3 2
3 1", header=TRUE)
datmat <- as.matrix(get.adjacency(graph.edgelist(as.matrix(dat),
directed=TRUE))) #this is the matrix
colnames(datmat) <- c("1", "2", "3") #rename the columns
When I applied the function to a matrix
centrality(datmat,type="flow",center=TRUE), it returns the error:
Error in if (class(networks) == "matrix") { :
the condition has length > 1
What is the cause of this error? How to fix it? Any help will be greatly
appreciated!
Best,
Chao
[[alternative HTML version deleted]]
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