Add Error Bars Ggplot2
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error bars Two within-subjects variables Note about normed means Helper functions Problem You want ggplot2 standard error bars to plot means and error bars for a dataset.
Ggplot2 Dodge Error Bars
Solution To make graphs with ggplot2, the data must be in a data frame,
Ggplot2 Barplot With Error Bars
and in “long” (as opposed to wide) format. If your data needs to be restructured, see this page for more information. Sample data The
Ggplot2 Points With Error Bars
examples below will the ToothGrowth dataset. Note that dose is a numeric column here; in some situations it may be useful to convert it to a factor. tg <- ToothGrowth head(tg) #> len supp dose ggplot2 horizontal error bars #> 1 4.2 VC 0.5 #> 2 11.5 VC 0.5 #> 3 7.3 VC 0.5 #> 4 5.8 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", Installing R/RStudio Running R/RStudio R Programming Basics Getting Help Installing R Packages R Built-in data sets Importing Data Preparing Files Importing txt|csv: R Base Functions Fast Importing txt|csv: readr package Importing Excel Files r calculate standard error Exporting Data Exporting to txt|csv Files: R Base Functions Fast Exporting to txt|csv Files: ggplot2 stat_summary readr package Exporting to Excel Files Saving Data into RDATA and RDS Formats Word Document Word Document from Template Add Table summaryse into Word Document Powerpoint Document Editable Graph From R to Powerpoint Reshaping Data Data Manipulation Data Visualization R Base Graphs Lattice Graphs Ggplot2 3D Graphics How to Choose Great Colors? 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Home Explorer Home Easy Guides R software Data Visualization ggplot2 - Essentials ggplot2 error bars : Quick start guide - R software and data visualization ggplot2 error bars : Quick start guide - R software and data visualization Discussion Add error bars to a bar and line plots Prepare the data Barplot with error bars Line plot with error bars Dot plot with mean point and error bars Infos This tutorial describes ho here for a quick overview of the site Help Center Detailed answers to any questions you might have Meta Discuss the workings and policies of this site About Us Learn more about Stack Overflow the http://stackoverflow.com/questions/19258460/standard-error-bars-using-stat-summary company Business Learn more about hiring developers or posting ads with us Stack Overflow Questions Jobs Documentation Tags Users Badges Ask Question x Dismiss Join the Stack Overflow Community Stack Overflow is a community of 4.7 million programmers, just like you, helping each other. Join them; it only takes a minute: Sign up Standard error bars using stat_summary up vote 8 down vote favorite 10 The following code produces bar plots with standard error bars error bars using Hmisc, ddply and ggplot: means_se <- ddply(mtcars,.(cyl), function(df) smean.sdl(df$qsec,mult=sqrt(length(df$qsec))^-1)) colnames(means_se) <- c("cyl","mean","lower","upper") ggplot(means_se,aes(cyl,mean,ymax=upper,ymin=lower,group=1)) + geom_bar(stat="identity") + geom_errorbar() However, implementing the above using helper functions such as mean_sdl seems much better. For example the following code produces a plot with 95% CI error bars: ggplot(mtcars, aes(cyl, qsec)) + stat_summary(fun.y = mean, geom = "bar") + stat_summary(fun.data = mean_sdl, geom = "errorbar") My question is how to use the stat_summary implementation for with error bars standard error bars. The problem is that to calculate SE you need the number of observations per condition and this must be accessed in mean_sdl's multiplier. How do I access this information within ggplot? Is there a neat non-hacky solution for this? r ggplot2 plyr share|improve this question edited Oct 8 '13 at 22:14 asked Oct 8 '13 at 21:08 aleph4 120111 1 Sorry, I don't quite understand what you mean when you write "you need number of observations per condition and this must be accessed in mean_sdl's multiplier". From ?smean.sdl: "mult is the multiplier of the standard deviation used in obtaining a coverage interval about the sample mean. The default is mult=2 to use plus or minus 2 standard deviations". I assume you have seen all the examples here on stat_summary and error bars, which seem to run 'automatically'. –Henrik Oct 8 '13 at 21:33 Standard error is SD divided by sqrt(n). As you can see the mult in my first code snippet does that to get standard error. However, in ggplot you don't have access to the N for each fold of the data-frame because this "summarization" is done internally. In ddply its easy to "manually" access the folds to query their length (n). How would you do this in stat_summary? –aleph4 Oc