Error Bars In R Line Plot
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How To Plot Error Bars By Hand
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on a plot in R up vote 23 down vote favorite 10 For each X-value I calculated the average Y-value and the standard deviation (sd) of each Y-value x = 1:5 y = c(1.1, 1.5, 2.9, 3.8, 5.2) sd = c(0.1, 0.3, 0.2, 0.2, 0.4) plot (x, y) How can I use the standard deviation to add error bars to each datapoint of my plot? r plot how to plot error bars with standard deviation statistics standard-deviation share|improve this question edited Oct 16 '14 at 3:43 Craig Finch 11417 asked Feb 25 '13 at 8:59 John Garreth 4572413 also see plotrix::plotCI –Ben Bolker Feb 25 '13 at 15:13 add a comment| 5 Answers 5 active oldest votes up vote 16 down vote accepted A Problem with csgillespie solution appears, when You have an logarithmic X axis. The you will have a different length of the small bars on the right an the left side (the epsilon follows the x-values). You should better use the errbar function from the Hmisc package: d = data.frame( x = c(1:5) , y = c(1.1, 1.5, 2.9, 3.8, 5.2) , sd = c(0.2, 0.3, 0.2, 0.0, 0.4) ) ##install.packages("Hmisc", dependencies=T) library("Hmisc") # add error bars (without adjusting yrange) plot(d$x, d$y, type="n") with ( data = d , expr = errbar(x, y, y+sd, y-sd, add=T, pch=1, cap=.1) ) # new plot (adjusts Yrange automatically) with ( data = d , expr = errbar(x, y, y+sd, y-sd, add=F, pch=1, cap=.015, log="x") ) share|improve this answer answered Sep 6 '13 at 14:21 R_User 3,18984581 add a comment| up vote 19 down vote A solution with ggplot2 : qplot(x,y)+geom_errorbar(aes(x=x, ymin=
error bars Two within-subjects variables Note about normed means Helper functions Problem You want to plot means and error bars
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for a dataset. Solution To make graphs with ggplot2, the
How To Plot Error Bars In Python
data must be in a data frame, and in “long” (as opposed to wide) format. If how to plot error bars in matlab your data needs to be restructured, see this page for more information. Sample data The examples below will the ToothGrowth dataset. Note that dose is a numeric http://stackoverflow.com/questions/15063287/add-error-bars-to-show-standard-deviation-on-a-plot-in-r column here; in some situations it may be useful to convert it to a factor. tg <- ToothGrowth head(tg) #> len supp dose #> 1 4.2 VC 0.5 #> 2 11.5 VC 0.5 #> 3 7.3 VC 0.5 #> 4 5.8 http://cookbook-r.com/Graphs/Plotting_means_and_error_bars_(ggplot2)/ VC 0.5 #> 5 6.4 VC 0.5 #> 6 10.0 VC 0.5 library(ggplot2) First, it is necessary to summarize the data. This can be done in a number of ways, as described on this page. In this case, we’ll use the summarySE() function defined on that page, and also at the bottom of this page. (The code for the summarySE function must be entered before it is called here). # summarySE provides the standard deviation, standard error of the mean, and a (default 95%) confidence interval tgc <- summarySE(tg, measurevar="len", groupvars=c("supp","dose")) tgc #> supp dose N len sd se ci #> 1 OJ 0.5 10 13.23 4.459709 1.4102837 3.190283 #> 2 OJ 1.0 10 22.70 3.910953 1.2367520 2.797727 #> 3 OJ
|| 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 error bars) or a factor or character variable (for horizontal error bars, x representing the group labels) http://svitsrv25.epfl.ch/R-doc/library/Hmisc/html/errbar.html y vector of y-axis values. yplus vector of y-axis values: the tops of the error http://docs.ggplot2.org/0.9.3.1/geom_errorbar.html 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 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 error bars labels if add=FALSE. ylab optional y-axis labels if add=FALSE. Defaults to blank for horizontal charts. add set to TRUE to add 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 how to plot 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 but the scale for differences has its origin shifted so that zero may be included. If at least one of the confidence intervals includes zero, a vertical dotted reference line at zero is drawn. Author(s) Charles Geyer, University of Chicago. Modified by Frank Harrell, Vanderbilt University, to handle missing data, to add the parameters add and lty, and to implement horizontal charts with differences. Examples set.seed(1) x <- 1:10 y <- x + rnorm(10) delta <- runif(10) errbar( x, y, y + delta, y - delta ) # Show bootstrap nonparametric CLs for 3 group means and for # pairwise differences on same graph group <- sample(c('a',
needs to be set at the layer level if you are overriding the plot defaults. data A layer specific dataset - only needed if you want to override the plot defaults. stat The statistical transformation to use on the data for this layer. position The position adjustment to use for overlappling points on this layer ... other arguments passed on to layer. This can include aesthetics whose values you want to set, not map. See layer for more details. Description Error bars. Aesthetics geom_errorbar understands the following aesthetics (required aesthetics are in bold): x ymax ymin alpha colour linetype size width Examples # Create a simple example dataset df # Because the bars and errorbars have different widths # we need to specify how wide the objects we are dodging are dodge Mapping a variable to y and also using stat="bin". With stat="bin", it will attempt to set the y value to the count of cases in each group. This can result in unexpected behavior and will not be allowed in a future version of ggplot2. If you want y to represent counts of cases, use stat="bin" and don't map a variable to y. If you want y to represent values in the data, use stat="identity". See ?geom_bar for examples. (Deprecated; last used in version 0.9.2) p Mapping a variable to y and also using stat="bin". With stat="bin", it will attempt to set the y value to the count of cases in each group. This can result in unexpected behavior and will not be allowed in a future version of ggplot2. If you want y to represent counts of cases, use stat="bin" and don't map a variable to y. If you want y to represent values in the data, use stat="identity". See ?geom_bar for examples. (Deprecated; last used in version 0.9.2) p + geom_bar(position=dodge) + geom_errorbar(limits, position=dodge, width=0.25) Mapping a variable to y and also using stat="bin". With stat="bin", it will attempt to set the y value to the count of cases in each group. This can result in unexpected behavior and will not be allowed in a future version of ggplot2. If you want y to represent counts of cases, use stat="bin" and don't map a variable to y. If you want y to represent values in the data, use stat="identity". See ?geom_bar for examples. (Deprecated; last used in version 0.9.2) p p + geom_pointrange(limits) p + geom_crossbar(limits, width=0.2) # If we want to draw lines, we need to manually set the # groups which define the lines - here the groups in the # original dataframe p + geom_line(aes(group=group)) + geom_errorbar(limits, width=