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#
# ~/.Rprofile
# configuration for R session
#
# Aaron LI
# Created: 2015-08-20
# Updated: 2016-01-28
#
# set common options
options(papersize="a4")
# change the prompt format
options(prompt="R> ")
# set the default CRAN mirror
local({
r <- getOption("repos")
r["CRAN"] <- "https://cran.r-project.org"
#r["CRAN"] <- "https://cran.rstudio.com"
#r["CRAN"] <- "https://mirrors.ustc.edu.cn/CRAN"
options(repos=r)
})
# "Vim-R-plugin" related settings
# http://www.lepem.ufc.br/jaa/r-plugin.html
# Note to start Vim with: ``vim --severname VIM``
if (interactive()) {
# Colorize the R output.
# http://www.lepem.ufc.br/jaa/colorout.html
require(colorout)
# Adjust the value of options("width") whenever the terminal is resized.
require(setwidth)
# "vimcom" creates a server on R to allow the communication with Vim
# through the "Vim-R-plugin"
# http://www.lepem.ufc.br/jaa/vimcom.html
options(vimcom.verbose=1)
require(vimcom)
}
# skewness
skew <- function(x, na.rm=FALSE) {
if (na.rm) {
x <- x[!is.na(x)]
}
n <- length(x)
m <- mean(x)
s <- sd(x)
skew <- sum((x-m)^3 / s^3) / n
return(skew)
}
# kurtosis
kurt <- function(x, na.rm=FALSE) {
if (na.rm) {
x <- x[!is.na(x)]
}
n <- length(x)
m <- mean(x)
s <- sd(x)
kurt <- sum((x-m)^4 / s^4) / n - 3
return(kurt)
}
# IQR mean: mean value of the elements within the interquantile range
# IQR: 25% - 75%
mean.iqr <- function(x, na.rm=TRUE) {
if (na.rm) {
x <- x[!is.na(x)]
}
x.sorted <- sort(x)
n <- length(x.sorted)
idx.quantile.bottom <- 1 + floor(n * 0.25)
idx.quantile.top <- n - floor(n * 0.25)
m.iqr <- mean(x.sorted[idx.quantile.bottom:idx.quantile.top])
return(m.iqr)
}
# Tricks to manage the available memory in an R session
# http://stackoverflow.com/q/1358003/4856091
.ls.objects <- function(pos=1, pattern, order.by,
decreasing=FALSE, pretty.size=FALSE,
head=FALSE, n=10) {
napply <- function(names, fn) {
sapply(names, function(x) fn(get(x, pos=pos)))
}
names <- ls(pos=pos, pattern=pattern)
obj.class <- napply(names, function(x) as.character(class(x))[1])
obj.mode <- napply(names, mode)
obj.type <- ifelse(is.na(obj.class), obj.mode, obj.class)
obj.size.bytes <- napply(names, object.size)
if (pretty.size) {
obj.size <- napply(names, function(x) {
format(object.size(x), units="auto")
})
} else {
obj.size <- obj.size.bytes
}
obj.dim <- t(napply(names, function(x) as.numeric(dim(x))[1:2]))
vec <- is.na(obj.dim)[, 1] & (obj.type != "function")
obj.dim[vec, 1] <- napply(names, length)[vec]
out <- data.frame(obj.type, obj.size, obj.dim)
names(out) <- c("Type", "Size", "Rows", "Columns")
if (! missing(order.by))
if (order.by == "Size") {
out <- out[order(obj.size.bytes, decreasing=decreasing), ]
} else {
out <- out[order(out[[order.by]], decreasing=decreasing), ]
}
if (head)
out <- head(out, n)
out
}
# shorthand
lsobjs <- function(..., n=10) {
.ls.objects(..., order.by="Size", decreasing=TRUE,
pretty.size=TRUE, head=TRUE, n=n)
}
# .First(): executed when start R session
#.First <- function() {
# cat("\nWelcome to R ~~~ (", date(), ")\n", sep="")
#}
# .Last(): executed before exit R session
#.Last <- function() {
# cat("\nGoodbye ~~~ (", date(), ")\n", sep="")
#}
# vim: set ts=8 sw=4 tw=0 fenc=utf-8 ft=r: #
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