Nothing
embed_MC <-
function(data, coords, loc.id, direction) {
# Transition probabilities estimation for Embedded Markov Chain
#
# data vector of data
# coords matrix of coordinates
# loc.id location Id (which_lines output)
# direction vector (or versor) of choosen direction
if (!is.matrix(coords)) coords <- as.matrix(coords)
storage.mode(coords) <- "double"
nc <- dim(coords)[2]
if (length(direction) != nc) stop("wrong length of direction vector")
if (!is.factor(data)) data <- as.factor(data)
nk <- nlevels(data)
labels <- levels(data)
n <- length(data)
if (n < nk^2) stop("there are not enough data to estimate the parameters")
if (n != dim(coords)[1]) stop("the number of data is not equal to the number of coordinates")
if (n != length(loc.id)) stop("length of \"loc.id\" must be equal to the data length")
loc.id <- as.integer(loc.id)
ord <- order(abs(direction), decreasing = TRUE)
ord <- cbind(loc.id, coords[, ord])
ord <- lapply(apply(ord, 2, list), unlist)
ord$decreasing <- TRUE
ord <- do.call("order", ord)
data <- data[ord]
loc.id <- loc.id[ord]
tcount <- vector("integer", nk^2)
tcount <- .C('cEmbedTrans', n = as.integer(n), nk = as.integer(nk),
locId = as.integer(loc.id), data = as.integer(data),
tcount = as.integer(tcount), PACKAGE = "spMC")$tcount
tprobs <- as.double(tcount)
tprobs <- .C('embedTProbs', nk = as.integer(nk), tp = as.double(tprobs),
PACKAGE = "spMC")$tp
tcount <- matrix(tcount, ncol = nk)
tprobs <- matrix(tprobs, ncol = nk)
diag(tcount) <- NA
diag(tprobs) <- NA
colnames(tcount) <- rownames(tcount) <- labels
colnames(tprobs) <- rownames(tprobs) <- labels
attr(tprobs, "Counts") <- tcount
return(tprobs)
}
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