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# Make faster ?
cm <- function(x) if(is.double(x)) x else if(is.character(x) && x == "overall.mean") -Inf else if(isFALSE(x)) Inf else stop("mean must be a number, 'overall.mean' or FALSE")
csd <- function(x) if(is.double(x)) x else if(is.character(x) && x == "within.sd") -Inf else stop("sd must be a number or 'within.sd'")
# TODO: w.type - Implement reliability weights?
fscale <- function(x, ...) UseMethod("fscale") # , x
fscale.default <- function(x, g = NULL, w = NULL, na.rm = .op[["na.rm"]], mean = 0, sd = 1, ...) {
# if(is.matrix(x) && !inherits(x, "matrix")) return(fscale.matrix(x, g, w, na.rm, mean, sd, ...))
if(!missing(...)) unused_arg_action(match.call(), ...)
if(is.null(g)) return(.Call(Cpp_fscale,x,0L,0L,w,na.rm,cm(mean),csd(sd)))
g <- G_guo(g)
.Call(Cpp_fscale,x,g[[1L]],g[[2L]],w,na.rm,cm(mean),csd(sd))
}
fscale.pseries <- function(x, effect = 1L, w = NULL, na.rm = .op[["na.rm"]], mean = 0, sd = 1, ...) {
if(!missing(...)) unused_arg_action(match.call(), ...)
g <- group_effect(x, effect)
res <- if(is.matrix(x))
.Call(Cpp_fscalem,x,fnlevels(g),g,w,na.rm,cm(mean),csd(sd)) else
.Call(Cpp_fscale,x,fnlevels(g),g,w,na.rm,cm(mean),csd(sd))
if(is.double(x)) return(res)
pseries_to_numeric(res)
}
fscale.matrix <- function(x, g = NULL, w = NULL, na.rm = .op[["na.rm"]], mean = 0, sd = 1, ...) {
if(!missing(...)) unused_arg_action(match.call(), ...)
if(is.null(g)) return(.Call(Cpp_fscalem,x,0L,0L,w,na.rm,cm(mean),csd(sd)))
g <- G_guo(g)
.Call(Cpp_fscalem,x,g[[1L]],g[[2L]],w,na.rm,cm(mean),csd(sd))
}
fscale.zoo <- function(x, ...) if(is.matrix(x)) fscale.matrix(x, ...) else fscale.default(x, ...)
fscale.units <- fscale.zoo
fscale.grouped_df <- function(x, w = NULL, na.rm = .op[["na.rm"]], mean = 0, sd = 1, keep.group_vars = TRUE, keep.w = TRUE, ...) {
if(!missing(...)) unused_arg_action(match.call(), ...)
g <- GRP.grouped_df(x, call = FALSE)
wsym <- substitute(w)
nam <- attr(x, "names")
gn2 <- which(nam %in% g[[5L]])
gn <- if(keep.group_vars) gn2 else NULL
if(!is.null(wsym)) {
w <- eval(wsym, x, parent.frame())
if(length(wn <- which(nam %in% all.vars(wsym)))) {
if(any(gn2 %in% wn)) stop("Weights coincide with grouping variables!")
gn2 <- c(gn2, wn)
if(keep.w) gn <- c(gn, wn)
}
}
if(length(gn2)) {
# if(!length(gn)) return(.Call(Cpp_fscalel,x[-gn2],g[[1L]],g[[2L]],w,na.rm,cm(mean),csd(sd)))
ax <- attributes(x)
ax[["names"]] <- c(nam[gn], nam[-gn2]) # first term is removed if !length(gn)
res <- .Call(Cpp_fscalel, .subset(x, -gn2), g[[1L]],g[[2L]],w,na.rm,cm(mean),csd(sd))
if(length(gn)) return(setAttributes(c(.subset(x, gn), res), ax)) else return(setAttributes(res, ax))
}
.Call(Cpp_fscalel,x,g[[1L]],g[[2L]],w,na.rm,cm(mean),csd(sd))
}
fscale.data.frame <- function(x, g = NULL, w = NULL, na.rm = .op[["na.rm"]], mean = 0, sd = 1, ...) {
if(!missing(...)) unused_arg_action(match.call(), ...)
if(is.null(g)) return(.Call(Cpp_fscalel,x,0L,0L,w,na.rm,cm(mean),csd(sd)))
g <- G_guo(g)
.Call(Cpp_fscalel,x,g[[1L]],g[[2L]],w,na.rm,cm(mean),csd(sd))
}
fscale.list <- function(x, ...) fscale.data.frame(x, ...)
fscale.pdata.frame <- function(x, effect = 1L, w = NULL, na.rm = .op[["na.rm"]], mean = 0, sd = 1, ...) {
if(!missing(...)) unused_arg_action(match.call(), ...)
g <- group_effect(x, effect)
.Call(Cpp_fscalel,x,fnlevels(g),g,w,na.rm,cm(mean),csd(sd))
}
# Standardization Operator
STD <- function(x, ...) UseMethod("STD") # , x
STD.default <- function(x, g = NULL, w = NULL, na.rm = .op[["na.rm"]], mean = 0, sd = 1, ...) {
# if(is.matrix(x) && !inherits(x, "matrix")) return(STD.matrix(x, g, w, na.rm, mean, sd, ...))
fscale.default(x, g, w, na.rm, mean, sd, ...)
}
STD.pseries <- function(x, effect = 1L, w = NULL, na.rm = .op[["na.rm"]], mean = 0, sd = 1, ...)
fscale.pseries(x, effect, w, na.rm, mean, sd, ...)
STD.matrix <- function(x, g = NULL, w = NULL, na.rm = .op[["na.rm"]], mean = 0, sd = 1, stub = .op[["stub"]], ...) {
res <- fscale.matrix(x, g, w, na.rm, mean, sd, ...)
if(isTRUE(stub) || is.character(stub)) return(add_stub(res, if(is.character(stub)) stub else "STD."))
res
}
STD.zoo <- function(x, ...) if(is.matrix(x)) STD.matrix(x, ...) else STD.default(x, ...)
STD.units <- STD.zoo
STD.grouped_df <- function(x, w = NULL, na.rm = .op[["na.rm"]], mean = 0, sd = 1, stub = .op[["stub"]], keep.group_vars = TRUE, keep.w = TRUE, ...) {
if(!missing(...)) unused_arg_action(match.call(), ...)
g <- GRP.grouped_df(x, call = FALSE)
wsym <- substitute(w)
nam <- attr(x, "names")
gn2 <- which(nam %in% g[[5L]])
gn <- if(keep.group_vars) gn2 else NULL
if(!is.null(wsym)) {
w <- eval(wsym, x, parent.frame())
if(length(wn <- which(nam %in% all.vars(wsym)))) {
if(any(gn2 %in% wn)) stop("Weights coincide with grouping variables!")
gn2 <- c(gn2, wn)
if(keep.w) gn <- c(gn, wn)
}
}
if(length(gn2)) {
ax <- attributes(x)
ax[["names"]] <- c(nam[gn], do_stub(stub, nam[-gn2], "STD."))
res <- .Call(Cpp_fscalel, .subset(x, -gn2), g[[1L]],g[[2L]],w,na.rm,cm(mean),csd(sd))
if(length(gn)) return(setAttributes(c(.subset(x, gn), res), ax)) else return(setAttributes(res, ax))
}
res <- .Call(Cpp_fscalel,x,g[[1L]],g[[2L]],w,na.rm,cm(mean),csd(sd))
if(isTRUE(stub) || is.character(stub)) return(add_stub(res, if(is.character(stub)) stub else "STD."))
res
}
# updated (best) version !
STD.pdata.frame <- function(x, effect = 1L, w = NULL, cols = is.numeric,
na.rm = .op[["na.rm"]], mean = 0, sd = 1, stub = .op[["stub"]], keep.ids = TRUE,
keep.w = TRUE, ...) {
if(!missing(...)) unused_arg_action(match.call(), ...)
ax <- attributes(x)
nam <- ax[["names"]]
g <- group_effect(x, effect)
cols_fun <- is.function(cols)
if(cols_fun && identical(cols, is.numeric)) cols <- which(.Call(C_vtypes, x, 1L))
else if(length(cols)) cols <- cols2int(cols, x, nam)
oldClass(x) <- NULL
if(cols_fun || keep.ids) {
gn <- which(nam %in% attr(findex(x), "nam")) # Needed for 3+ index variables
if(length(gn)) {
if(cols_fun) cols <- fsetdiff(cols, gn)
else if(is.null(cols)) cols <- seq_along(x)[-gn]
}
if(!keep.ids) gn <- NULL
} else gn <- NULL
if(is.call(w)) {
wn <- ckmatch(all.vars(w), nam, "Unknown weight variable:")
w <- eval(w[[2L]], x, attr(w, ".Environment")) # w <- x[[wn]]
cols <- if(is.null(cols)) seq_along(x)[-wn] else cols[cols != wn]
if(keep.w) gn <- c(gn, wn)
}
if(length(gn) && length(cols)) {
ax[["names"]] <- c(nam[gn], do_stub(stub, nam[cols], "STD."))
return(setAttributes(c(x[gn], .Call(Cpp_fscalel,x[cols],fnlevels(g),g,w,na.rm,cm(mean),csd(sd))), ax))
}
if(!length(gn)) {
ax[["names"]] <- do_stub(stub, nam[cols], "STD.")
return(setAttributes(.Call(Cpp_fscalel,x[cols],fnlevels(g),g,w,na.rm,cm(mean),csd(sd)), ax))
}
if(isTRUE(stub) || is.character(stub)) {
ax[["names"]] <- do_stub(stub, nam, "STD.")
return(setAttributes(.Call(Cpp_fscalel,x,fnlevels(g),g,w,na.rm,cm(mean),csd(sd)), ax))
}
.Call(Cpp_fscalel,`oldClass<-`(x, ax[["class"]]),fnlevels(g),g,w,na.rm,cm(mean),csd(sd))
}
# updated, fast and data.table proof version !
STD.data.frame <- function(x, by = NULL, w = NULL, cols = is.numeric,
na.rm = .op[["na.rm"]], mean = 0, sd = 1, stub = .op[["stub"]], keep.by = TRUE,
keep.w = TRUE, ...) {
if(!missing(...)) unused_arg_action(match.call(), ...)
if(is.call(by) || is.call(w)) {
ax <- attributes(x)
class(x) <- NULL
nam <- names(x)
if(is.call(by)) {
if(length(by) == 3L) {
cols <- ckmatch(all.vars(by[[2L]]), nam)
gn <- ckmatch(all.vars(by[[3L]]), nam)
} else {
gn <- ckmatch(all.vars(by), nam)
cols <- cols2intrmgn(gn, cols, x)
}
by <- G_guo(if(length(gn) == 1L) x[[gn]] else x[gn])
if(!keep.by) gn <- NULL
} else {
gn <- NULL
if(length(cols)) cols <- cols2int(cols, x, nam)
by <- if(is.null(by)) list(0L, 0L) else G_guo(by)
}
if(is.call(w)) {
wn <- ckmatch(all.vars(w), nam, "Unknown weight variable:")
w <- eval(w[[2L]], x, attr(w, ".Environment")) # w <- x[[wn]]
cols <- if(is.null(cols)) seq_along(x)[-wn] else cols[cols != wn]
if(keep.w) gn <- c(gn, wn)
}
if(length(gn)) {
ax[["names"]] <- c(nam[gn], do_stub(stub, nam[cols], "STD."))
return(setAttributes(c(x[gn], .Call(Cpp_fscalel,x[cols],by[[1L]],by[[2L]],w,na.rm,cm(mean),csd(sd))), ax))
}
ax[["names"]] <- do_stub(stub, nam[cols], "STD.")
return(setAttributes(.Call(Cpp_fscalel,x[cols],by[[1L]],by[[2L]],w,na.rm,cm(mean),csd(sd)), ax))
} else if(length(cols)) { # Needs to be like this, otherwise subsetting dropps the attributes !!
ax <- attributes(x)
class(x) <- NULL
x <- x[cols2int(cols, x, names(x), FALSE)]
ax[["names"]] <- names(x)
setattributes(x, ax)
}
if(isTRUE(stub) || is.character(stub)) attr(x, "names") <- do_stub(stub, attr(x, "names"), "STD.")
if(is.null(by)) return(.Call(Cpp_fscalel,x,0L,0L,w,na.rm,cm(mean),csd(sd)))
by <- G_guo(by)
.Call(Cpp_fscalel,x,by[[1L]],by[[2L]],w,na.rm,cm(mean),csd(sd))
}
STD.list <- function(x, ...) STD.data.frame(x, ...)
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