Ggplot Bar Plot Error Bars
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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 r calculate standard error to override the plot defaults. stat The statistical transformation to use ggplot2 stat_summary on the data for this layer. position The position adjustment to use for overlappling points on this layer ggplot confidence interval ... 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
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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 geom_errorbar linetype 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 v
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 error bars in r Packages Tips & Tricks Visualizing Data Building Barplots with Error Bars by Chris
Geom_errorbar Horizontal
Wetherill on August 17, 2015 3 Comments Bar charts are a pretty common way to represent data visually, but
Barplot With Error Bars R
constructing them isn't always the most intuitive thing in the world. One way that we can construct these graphs is using R's default packages. Barplots using base R Let's start by viewing http://docs.ggplot2.org/0.9.3.1/geom_errorbar.html 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 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$gear), FUN = function(x) c(mean = mean(x), http://datascienceplus.com/building-barplots-with-error-bars/ sd = sd(x), n = length(x))) After this, we'll need to do a little manipulation since the previous function returned matrices instead of vectors myData <- do.call(data.frame, myData) And now let's compute the standard error for each group. We can then rename the columns just for ease of use. myData$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) + myDa
here for a quick overview of the site Help Center Detailed answers to any questions you might have Meta Discuss the workings and http://stackoverflow.com/questions/15064462/r-ggplot2-barplot-and-error-bar policies of this site About Us Learn more about Stack Overflow the http://stackoverflow.com/questions/29768219/grouped-barplot-in-r-with-error-bars 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 error bars takes a minute: Sign up R: ggplot2 barplot and error bar up vote 2 down vote favorite Since the new version of ggplot2 (0.9.3), I've problem to plot barplots with errorbars. So I've a dataframe like this : group N val sd se ci 1 206 3 37.2269533 7.9688645 4.6008261 19.7957568 2 207 3 2.0731505 2.2843009 1.3188417 5.6745180 3 208 3 ggplot bar plot 2.2965978 1.4120606 0.8152536 3.5077531 4 209 3 3.1085132 1.1986664 0.6920504 2.9776525 5 210 3 3.3735251 1.9226134 1.1100214 4.7760365 6 211 3 4.0477951 2.9410503 1.6980162 7.3059739 7 212 3 1.2391158 1.2345554 0.7127709 3.0668055 8 213 2 1.3082374 1.1234220 0.7943793 10.0935460 I want to plot for each group the val +- s : I did that before upgrade : ggplot(dfc, aes(x=factor(group), y=factor(val)) + geom_bar(position=position_dodge()) + geom_errorbar(aes(ymin=val-se, ymax=val+se),width=.1,position=position_dodge(.9)) It gives me that: 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) So anyone knows how to resolve that ? Thanks N. r ggplot2 share|improve this question asked Feb 25 '13 at 10:06 NicoBxl 3374515 add a comment| 1 Answe
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 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 Grouped barplot in R with error bars up vote 4 down vote favorite 1 Dear Stackoverflow users, I would like to draw a grouped barplot with error bars. Here is the kind of figure I have been able to get up to now, and this is ok for what I need: And here is my script: #create dataframe Gene<-c("Gene1","Gene2","Gene1","Gene2") count1<-c(12,14,16,34) count2<-c(4,7,9,23) count3<-c(36,22,54,12) count4<-c(12,24,35,23) Species<-c("A","A","B","B") df<-data.frame(Gene,count1,count2,count3,count4,Species) df mean1<-mean(as.numeric(df[1,][c(2,3,4,5)])) mean2<-mean(as.numeric(df[2,][c(2,3,4,5)])) mean3<-mean(as.numeric(df[3,][c(2,3,4,5)])) mean4<-mean(as.numeric(df[4,][c(2,3,4,5)])) Gene1SpeciesA.stdev<-sd(as.numeric(df[1,][c(2,3,4,5)])) Gene2SpeciesA.stdev<-sd(as.numeric(df[2,][c(2,3,4,5)])) Gene1SpeciesB.stdev<-sd(as.numeric(df[3,][c(2,3,4,5)])) Gene2SpeciesB.stdev<-sd(as.numeric(df[4,][c(2,3,4,5)])) ToPlot<-c(mean1,mean2,mean3,mean4) #plot barplot plot<-matrix(ToPlot,2,2,byrow=TRUE) #with 2 being replaced by the number of genes! tplot<-t(plot) BarPlot <- barplot(tplot, beside=TRUE,ylab="count", names.arg=c("Gene1","Gene2"),col=c("blue","red")) #add legend legend("topright", legend = c("SpeciesA","SpeciesB"), fill = c("blue","red")) #add error bars ee<-matrix(c(Gene1SpeciesA.stdev