Bar Plot Error Bars R
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Barplot With Error Bars Ggplot2
A simple workflow for deep learning gcbd 0.2.6 RcppCNPy 0.2.6 Using R to detect fraud at 1 million transactions per second Introducing the eRum 2016 sponsors The Simpsons by the Data Other sites Jobs for R-users SAS blogs Building Barplots with Error Bars August 17, 2015By Chris Wetherill (This article was first published on DataScience+, and kindly contributed to R-bloggers) Bar charts are a pretty common way to represent data visually, but 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 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), 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 err
a barplot with errorbars Now this is a barplot with error bars matlab tricky one: I wrote a script to plot a barplot with errorbars. I used the following https://www.r-bloggers.com/building-barplots-with-error-bars/ script: #barplot where x is the independent on the x-axis, y is the #dependent on the y-axis and z is the independent given by #different colored bars anova.plot<-function(x, y, z, ylab="y", xlab="x", ylim=c(0, max(xx)+max(yy)), http://rstatistics.tumblr.com/post/470327991/make-a-barplot-with-errorbars-now-this-is-a length=0.05){ #height of the bars xx<-tapply(y,list(z,x),mean) #standard deviation yy<-tapply(y,list(z,x),sd) #number of replicates zz<-tapply(y,list(z,x),length) #standard error er<-yy/sqrt(zz) #number of colors for bars w<-length(levels(z)) #simple barplot without the errorbars barx<-barplot(xx, col=c(1:w), beside=T, ylab=ylab, xlab=xlab, ylim=ylim,xpd=FALSE) #box around the plot box() #error bars arrows(barx,xx+er, barx, xx, angle=90, code=1, length=length) #legend (after making the plot, indicate where the legend has #to come with the mouse) legend(locator(1),c(levels(z)),fill=c(1:w),bty="n",cex=0.8) } If you have set your palette to: palette(c("grey25","grey50","grey75","white")) you get a plot like the one above if you use: anova.plot(x,y,z) (6 years ago) archive : rss : theme "2001" by 54mf : powered by Tumblr
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/29768219/grouped-barplot-in-r-with-error-bars policies of this site About Us Learn more about Stack Overflow the http://stackoverflow.com/questions/18561066/adding-error-bars-to-a-bar-plot-in-r-using-calculated-standard-errors 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 bar 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: with error bars #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,Gene2SpeciesA.stdev,Gene1SpeciesB.stdev,Gene2SpeciesB.stdev),2,2,byrow=TRUE)*1.96/sqrt(4) tee<-t(ee) error.bar(BarPlot,tplot,tee) The problem is that I need to do this for 50 genes, and 4 species, so my script is gonna get super super long and I guess this is not optimized... I tried to find help here but I can't figure out a better way to do what I'd like. If I did not need error bars I could adapt this script but the tricky part is to mix ggplot beautiful barplots and error bars! ;) If you have any idea to optimize my script, I would really appreciate! :) Thanks a lot! r ggplot2 bar-chart share|improve this question asked Apr 21 '15 at 9:32 tlorin 173213 1 beware by doing t(plot) you completely inversed the gene ;) –Colonel Beauvel Apr 21 '15 at 11:36 add a commen
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 Adding error bars to a bar plot in R using calculated standard errors up vote 2 down vote favorite I created the barplot using two columns from a text file which also has a third column for standard errors. I used barplot() for this. How do I add error bars using my column, se, from my text file? I tried using error.bar() but that didn't work. r bar-chart share|improve this question edited Sep 1 '13 at 17:39 sgibb 16.1k12749 asked Sep 1 '13 at 17:36 user2714330 45127 2 Welcome on SO! Please read How to make a great R reproducible example?. –sgibb Sep 1 '13 at 17:39 add a comment| 1 Answer 1 active oldest votes up vote 1 down vote accepted You are asking for "dynamite plots": http://emdbolker.wikidot.com/blog:dynamite and http://biostat.mc.vanderbilt.edu/wiki/Main/DynamitePlots share|improve this answer answered Sep 1 '13 at 17:50 42- 165k8145275 Thanks for your help DWin! –user2714330 Sep 1 '13 at 18:28 Thanks for the checkmark, but this answer is arguably a link-only answer and probably should have been deleted. –42- Nov 14 '14 at 19:31 add a comment| Your Answer draft saved draft discarded Sign up or log in Sign up using Google Sign up using Facebook Sign up using Email and Password Post as a guest Name Email Post as a guest Name Email discard By posting your answer, you agree to the privacy policy and terms of service. Not the answer you're looking for? Browse other questions tagged r bar-chart or ask your own question. asked 3 years ago viewed 3