ggplot2 is an actively maintained open-source chart-drawing library for R, written by Hadley Wickham, based upon the principles of "The Grammar of Graphics". It partially replaces R's basic plot and the lattice package, while providing a clean, powerful, orthogonal and fun API.

learn more… | top users | synonyms (1)

0
votes
0answers
14 views

Choropleth / thematic map in R with ggplot2 not filling polygons [migrated]

I am doing the following: I read a shapefile containing boundaries within a city (Leeds for example), then I read another data set (csv.) containing the number of females in each area for which I ...
0
votes
2answers
32 views

The meaning of units on the axes of a PCA plot

I've used the R packages DESeq2 and ggplot2 and the following code ...
1
vote
0answers
17 views

ggplot or qplot histogram in R [migrated]

I know this is pretty much a basic question, but I have some trouble in drawing histograms from a single vector containing these numbers (dat): ...
1
vote
1answer
46 views

Plotting a polynomial regression with its confidence interval of 95% in R

I have been trying for a while plotting a polynomial regression using R. I have read several libraries, as ggplot2, qplot, etc, with no succeed. The next are my data: I normally use the R GUI called ...
0
votes
0answers
15 views

ggplot2, change title size [migrated]

I would like to have my main title and axis title have the same font size as the annotated text in my plot. i used theme_get() and found that text size is 12, so I did that in my theme statement - ...
0
votes
0answers
3 views

full text label on Boxplot, with added mean point [migrated]

Am trying to get text label similar to what this Labeling boxplots in R, but I cant get it to work. MWE similar to what I have is this: ...
1
vote
0answers
35 views

Subject-specific graphics for repeated-measure design

I am doing linear mixed effect modelling testing the effect of treatment on pitch, with ...
0
votes
0answers
42 views

Curve fitting in R. L-shaped?

I have measurements for my dependent and independent variable across 4 different experimental sites ...
0
votes
0answers
14 views

R: Fit a trendline to these points in ggplot [duplicate]

I have measurements for my dependent and independent variable across 4 different experimental sites ...
2
votes
0answers
28 views

Describing GAM from ggplot's stat_smooth in a paper

I am writing a paper where I have some figures with lines drawn using ggplot2's stat_smooth with no arguments. When I generate a ...
-1
votes
1answer
40 views

Rearrange boxplot with ggplot [closed]

My data looks as follows: X=cbind(var1=rbinom(100,1,0.26),var2=rbinom(100,1,0.01), var3=rbinom(100,1,0.07),var4=rbinom(100,1,0.09),var5=rbinom(100,1,0.004)) If ...
0
votes
2answers
95 views

Density plot narrow peaks and mean far away from peaks

I am trying to understand a density plot. It has narrow peaks and means are far away from the peaks. What would be the reason for such behavior? Should I be doing a different plot to understand this ...
1
vote
2answers
57 views

Density Plot, scatter plot or Regression if not both best way to visualize

I am working with a data set that has information of users and their contributions. Each user has expert level and contribute to multiple section of the project. Here is a sample data set: ...
0
votes
0answers
146 views

Plotting histogram in R, error on stat=“bin”

I'm trying to plot day against number of migrations as a histogram in R, but I'm coming up with this error message: ...
1
vote
2answers
1k views

Best approach in R for interpolating and curve fitting a tiny dataset?

I have a set of 'activity' values for some enzyme assays I have been doing, that come out of some analysis I've been doing. The problem is, the data is fairly crap, and there aren't many points, but ...
0
votes
0answers
13 views

Using density estimate to look for problems in data collection - with R

I am analysing some data coming from different media (tv, press, ...). I would like to test if the data I have are good (if the collect was flawless), identify big issues and eventually understand ...
0
votes
1answer
242 views

Scatter plots in ggplot2 with non linear trend line [closed]

I'm trying to create a scatter plot using ggplot. The x value goes roughly from 0-20, and the y value goes from 0-~50. The data is raw so it's not nice and neat and I need to plot a curved line ...
0
votes
0answers
27 views

Terminology and handling of log-normal mixture distributions

The definition of a log-normal distribution of a random variable is based on normality of its logarithm. I'm curious whether there exist a specific term for cases, where log-transformed data does not ...
0
votes
1answer
82 views

Compare regression slopes of repeated measures linear regression

In my design, I have two groups of subjects and every subject is tested in four different conditions. So, I have a within-subject factor ('span_num', which ranges from 0 to 3) and a between-subject ...
2
votes
1answer
1k views

Smoother lines for ggplot2

This question probably has a simple solution, still the thing is I've written a code to plot mortality in 2 different groups and that is, death in obese patients vs not obese. Now their are 2 groups ...
2
votes
1answer
103 views

How to plot a comparison of read counts in R

I have a bunch of genetic read counts for different several genes. Each gene is divided into two groups (0 and 1). What I want to do is make a vertical plot side by side of the 0 group and the 1 ...
2
votes
1answer
646 views

R scatterplot matrix with nonparametric density

I normally use MATLAB, or JMP but right now am working with R. I have ~150 dimensional data with a few hundred thousand rows. Some of the columns are non-informative, they only have one value. This ...
1
vote
0answers
101 views

Contradicting interaction significance with graphical visualisation in glmer

I'm investigating environmental effects (wind) on acoustic receiver detection probability for two types of transmitters using a binomial glmer. While my model analysis indicates that there's a ...
2
votes
1answer
1k views

How can I 'dodge' the position of geom_point in ggplot2?

I am using ggplot2 in R to make plots like the following ones: The errorbars overlap with each other which look really messy. How can I separate the errorbars for different indices? I have used ...
0
votes
0answers
19 views

Plot triple optimization boosting procedure

I am looking for a way to graph a triple optimization used in boosting. I did individual cross-validation on shrinkage, number of trees, and interaction depth and found the boundaries of interesting ...
0
votes
0answers
971 views

Q: plot glmm fixed and random effects (glmer in package lme4) using ggplot2

I am trying to visualize the results from a glmm that I ran with the lme4 package. ...
2
votes
2answers
215 views

How can I cluster data in a grid-like fashion and heat map the averages in R?

I have a data frame of 3 columns. The first one is the response variable the second and the third ones are some criteria. You can create your own example similar to mine, using this piece of code with ...
1
vote
2answers
75 views

What is the best way to automatically select sensible, comprehensible breakpoints?

ggplot2 seems to, by default, select very nice, comprehensible breaks for continuous data. I would like to plot the data according to one scale (logistic) by ...
5
votes
1answer
51 views

Parameter region for existence of solutions of equation

How does one plot the set S of parameter region of equations using r?. My problem is that I have one equation with 2 variables defined by $g(x,a,b) = 0$ and I want to plot the set of $(a,b)$ where the ...
0
votes
1answer
126 views

Can I Use a Dummy Variable in Quadratic form in lm() in R?

I'm trying to replicate models published in The Age-Productivity Gradient: Evidence from a Sample of F1 Drivers and am stumbling at first hurdle over a line "the baseline specification contains a ...
1
vote
2answers
32 views

T test with one group

I think it is a simple question, but I got many different results and now I am not sure which test to use. I have one group and 2 different scores (higher scores means higher either positive or ...
5
votes
1answer
159 views

Demonstrate difference in growth over time

Short version Is there a difference per treatment given time and this dataset? Or if the difference we're trying to demonstrate is important, what's the best method we have for teasing this out? ...
2
votes
1answer
367 views

R ggplot2/ezPlot: Plotting 3x3 RM ANOVA design per quantile of covariate with error bars

First of all, my data: http://www.pastebin.ca/2599202 (I hope this is not too inconvenient, because I fail creating good fitting example data) What I basically need, is a plot like: I plotted the ...
1
vote
1answer
258 views

Learning curve shows decreasing accuracy

I'm working on a random forest classifier with 10-folds CV to aestimate the hyperparameter 'mtry' (chosen by maximizing AUROC). I decided to pre-split the training set in 8 samples equals in size ...
0
votes
1answer
2k views

Risk table for a Kaplan Meier plot in R

I need to make a Kaplan Meier plot with a risk table beneath it. Otherwise stated, I need a table of the number of subjects at risk at different time points aligned below the figure. I found a website ...
2
votes
1answer
225 views

Plot 3 density plots in the same graph, showing also standard deviation limits in each one

I have obtained from a paper next results: Variable 1: Mean=165, sd=15 Variable 2: Mean=149, sd=18 Variable 3: Mean=134, sd=25 I have simulated normal distributions using rnorm. This is the way ...
0
votes
1answer
1k views

In R, how do I fit a student-t distribution to a set of empirical data? [duplicate]

In R, I can fit a Probability Density Function to some empirical data using the following code: ...
1
vote
2answers
52 views

Plotting data from several files on one plot

I have more than one file of data from different experiments. For the sake of the argument here, let's say I have three files E1.txt, ...
0
votes
2answers
119 views

How to retrieve adjusted values for a predictor variable in a linear model in R

Using R and ggplot, I would like to plot my output variable with one of my predictor variables adjusted for the other variables in the model. (I'm asking this question here, because I don't actually ...
1
vote
0answers
26 views

Creating a ‘bounding polygon’ for a set of points (preferably with GGplot2) [duplicate]

In R, Lets say that I have a set of x and y points, how can I get a geom_polygon to encapsulate all points, ie, what is the best way to create a 'bounding' polygon ...
3
votes
2answers
181 views

Comparing weights versus time graphically using reshape, vioplot, and ggplot2

I have a group of 200 children who came to clinic at months 0, 1, 2, 3, 6, 9, and 12 this year. At each clinic visit the children were weighed. ...
1
vote
0answers
467 views

Creating summary tables / graphics in R for categorical data [closed]

I am trying to summarise data from a household survey and as such most of my data is categorical (factor) data. I was looking to summarise it with plots of frequencies of responses to certain ...
1
vote
0answers
148 views

How build smoothed curve of incidence rates using subject data? [closed]

I have a dataset with subjects ($\text{data}_0$). Each subject has a follow up time ($\text{fuy}$), an indicator for incidence ($\text{ind} = 0/1$) and a variable which indicates, for example, year of ...
6
votes
4answers
1k views

Boxplot equivalent for heavy-tailed distributions?

For approximately normally distributed data, boxplots are a great way to quickly visualize the median and spread of the data, as well as the presence of any outliers. However for more heavy-tailed ...
1
vote
1answer
91 views

Plotting the gap between two times

I have a (large) dataset where I know, for each observation, the departure and the arrival time of a worker (between 0 and 24, in decimal) : ...
0
votes
1answer
1k views

US heatmap using zipcodes

We are attempting to create a US heatmap using only zipcode and corresponding values using R. While there are a number of examples that use lat and long data for creating such maps, is there one that ...
1
vote
0answers
116 views

Is LOESS the appropriate way of visualizing my RT data?

I am conducting a Lexical Decision Task where my dependent random variable is Response Time (RT). My experimental design consists of 5 blocks of a 100 trials each. In each block, 50% of trials ...
3
votes
1answer
178 views

Graphical representation of cross-validation errors for regression

What are some good ways of presenting/comparing cross-validated RMSE errors for regression using various models, graphically via plots? As of now, I have been presenting the quantitative results in ...
8
votes
1answer
3k views

How does ggplot compute confidence intervals for regressions?

The R plotting package ggplot2 has an awesome function called stat_smooth for plotting a regression line (or curve) with the associated confidence band. However I am having a hard time figuring out ...
2
votes
2answers
371 views

Plotting a model in R

I have used the vglm() function from the VGAM package to obtain a Weibull model for some data. I would like to plot the curve that this model is represented by. How do I do this? Here's my input and ...