Error Bars R
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Add Error Bars R Barplot
other. Join them; it only takes a minute: Sign up Scatter plot with error bars up vote 21 down vote favorite 11 How can I generate the following plot in R? Points, shown in the plot are the
Error.bar Function R
averages, and their ranges correspond to minimal and maximal values. I have data in two files (below is an example). x y 1 0.8773 1 0.8722 1 0.8816 1 0.8834 1 0.8759 1 0.8890 1 0.8727 2 0.9047 2 0.9062 2 0.8998 2 0.9044 2 0.8960 .. ... r plot share|improve this question edited Oct 23 '12 at 15:10 Roland 73.2k463102 asked Oct 23 '12 at 14:29 sherlock85 1521313 Since you clearly don't want a boxplot, standard error I changed the title of your question in order to reflect what you really want. –Roland Oct 23 '12 at 15:11 1 also plotrix::plotCI, gplots::plotCI, library("sos"); findFn("{error bar}") –Ben Bolker Oct 23 '12 at 17:29 add a comment| 5 Answers 5 active oldest votes up vote 52 down vote accepted First of all: it is very unfortunate and surprising that R cannot draw error bars "out of the box". Here is my favourite workaround, the advantage is that you do not need any extra packages. The trick is to draw arrows (!) but with little horizontal bars instead of arrowheads (!!!). This not-so-straightforward idea comes from the R Wiki Tips and is reproduced here as a worked-out example. Let's assume you have a vector of "average values" avg and another vector of "standard deviations" sdev, they are of the same length n. Let's make the abscissa just the number of these "measurements", so x <- 1:n. Using these, here come the plotting commands: plot(x, avg, ylim=range(c(avg-sdev, avg+sdev)), pch=19, xlab="Measurements", ylab="Mean +/- SD", main="Scatter plot with std.dev error bars" ) # hack: we draw arrows but with very special "arrowheads" arrows(x, avg-sdev, x, avg+sdev, length=0.05, angle=90, code=3) The result looks like this: In the arrows(...) function length=0.05 is the size of the "arrowhead" in inches, angle=90 specifies that the "arrowhead" is perpendicular to the shaft of the arrow, and the
tutorials cover different topics including statistics, data manipulation and visualization! Introduction Getting Data Data Management Visualizing Data Basic Statistics Regression Models Advanced Modeling Programming Best R Packages Tips & Tricks Visualizing Data Building Barplots with Error Bars by
R Errbar
Chris Wetherill on August 17, 2015 3 Comments Bar charts are a pretty common way r plotci to represent data visually, but constructing them isn't always the most intuitive thing in the world. One way that we can construct these r plot error bars scatter plot graphs is using R's default packages. Barplots using base R Let's start by viewing our dataframe: here we will be finding the mean miles per gallon by number of cylinders and number of gears. View(mtcars) We begin by http://stackoverflow.com/questions/13032777/scatter-plot-with-error-bars aggregating our data by cylinders and gears and specify that we want to return the mean, standard deviation, and number of observations for each group: myData <- aggregate(mtcars$mpg, by = list(cyl = mtcars$cyl, gears = mtcars$gear), FUN = function(x) c(mean = mean(x), sd = sd(x), n = length(x))) After this, we'll need to do a little manipulation since the previous function returned matrices instead of vectors myData <- do.call(data.frame, myData) And now let's compute the standard error for http://datascienceplus.com/building-barplots-with-error-bars/ each group. We can then rename the columns just for ease of use. myData$se <- myData$x.sd / sqrt(myData$x.n) colnames(myData) <- c("cyl", "gears", "mean", "sd", "n", "se") myData$names <- c(paste(myData$cyl, "cyl /", myData$gears, " gear")) Now we're in good shape to start constructing our plot! Here, we'll start by widening the plot margins just a tad so that nothing runs off the edge of the figure (using the par() function). It's also a good habit to specify the upper bounds of your plot since the error bars are going to extend past the height of your bars. Beyond this, it's just any additional aesthetic styling that you want to tweak and you're good to go! The error bars are added in at the end using the segments() and arrows() functions. In this case, we are extending the error bars to ±2 standard errors about the mean. par(mar = c(5, 6, 4, 5) + 0.1) plotTop <- max(myData$mean) + myData[myData$mean == max(myData$mean), 6] * 3 barCenters <- barplot(height = myData$mean, names.arg = myData$names, beside = true, las = 2, ylim = c(0, plotTop), cex.names = 0.75, xaxt = "n", main = "Mileage by No. Cylinders and No. Gears", ylab = "Miles per Gallon", border = "black", axes = TRUE) # Specify the groupings. We use srt = 45 for a # 45 degree string rotation text(x = barCenters, y = par("usr")[3]
|| is.character(x)) "" else as.character(substitute(y)), add=FALSE, lty=1, type='p', ylim=NULL, lwd=1, pch=16, Type=rep(1, length(y)), ...) Arguments x vector of numeric x-axis values (for vertical http://svitsrv25.epfl.ch/R-doc/library/Hmisc/html/errbar.html error bars) or a factor or character variable (for horizontal error bars, x representing the group labels) y vector of y-axis values. yplus vector of y-axis values: the http://www.sthda.com/english/wiki/ggplot2-error-bars-quick-start-guide-r-software-and-data-visualization tops of the error bars. yminus vector of y-axis values: the bottoms of the error bars. cap the width of the little lines at the tops and bottoms error bars of the error bars in units of the width of the plot. Defaults to 0.015. main a main title for the plot, see also title. sub a sub title for the plot. xlab optional x-axis labels if add=FALSE. ylab optional y-axis labels if add=FALSE. Defaults to blank for horizontal charts. add set to TRUE to add error bars r bars to an existing plot (available only for vertical error bars) lty type of line for error bars type type of point. Use type="b" to connect dots. ylim y-axis limits. Default is to use range of y, yminus, and yplus. For horizonal charts, ylim is really the x-axis range, excluding differences. lwd line width for line segments (not main line) pch character to use as the point. Type used for horizontal bars only. Is an integer vector with values 1 if corresponding values represent simple estimates, 2 if they represent differences. ... other parameters passed to all graphics functions. Details errbar adds vertical error bars to an existing plot or makes a new plot with error bars. It can also make a horizontal error bar plot that shows error bars for group differences as well as bars for groups. For the latter type of plot, the lower x-axis scale corresponds to group estimates and the upper scale corresponds to differences. The spacings of the two scales are identical
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