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Visualizing Data

- Published on September 2, 2016 at 12:00 pm
- Updated on April 28, 2017 at 6:27 pm

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Before we perform any analysis and come up with any assumptions about the distributions of and relationships between variables in our datasets, it is always a good idea to visualize our data in order to understand their properties and identify appropriate analytics techniques. In this post, let’s see the dramatic differences in conclutions that we can make based on (1) simple statistics only, and (2) data visualization.

The Anscombe dataset, which is found in the base R datasets packege, is handy for showing the importance of data visualization in data analysis. It consists of four datasets and each dataset consists of eleven (x,y) points.

anscombex1 x2 x3 x4 y1 y2 y3 y4 1 10 10 10 8 8.04 9.14 7.46 6.58 2 8 8 8 8 6.95 8.14 6.77 5.76 3 13 13 13 8 7.58 8.74 12.74 7.71 4 9 9 9 8 8.81 8.77 7.11 8.84 5 11 11 11 8 8.33 9.26 7.81 8.47 6 14 14 14 8 9.96 8.10 8.84 7.04 7 6 6 6 8 7.24 6.13 6.08 5.25 8 4 4 4 19 4.26 3.10 5.39 12.50 9 12 12 12 8 10.84 9.13 8.15 5.56 10 7 7 7 8 4.82 7.26 6.42 7.91 11 5 5 5 8 5.68 4.74 5.73 6.89

Let’s make some massaging to make the data more convinient for analysis and plotting

Create four groups: setA, setB, setC and setD.

library(ggplot2) library(dplyr) library(reshape2) setA=select(anscombe, x=x1,y=y1) setB=select(anscombe, x=x2,y=y2) setC=select(anscombe, x=x3,y=y3) setD=select(anscombe, x=x4,y=y4)

Add a third column which can help us to identify the four groups.

setA$group ='SetA' setB$group ='SetB' setC$group ='SetC' setD$group ='SetD' head(setA,4) # showing sample data points from setAx y group 1 10 8.04 SetA 2 8 6.95 SetA 3 13 7.58 SetA 4 9 8.81 SetA

Now, let’s merge the four datasets.

all_data=rbind(setA,setB,setC,setD) # merging all the four data sets all_data[c(1,13,23,43),] # showing samplex y group 1 10 8.04 SetA 13 8 8.14 SetB 23 10 7.46 SetC 43 8 7.91 SetD

summary_stats =all_data%>%group_by(group)%>%summarize("mean x"=mean(x), "Sample variance x"=var(x), "mean y"=round(mean(y),2), "Sample variance y"=round(var(y),1), 'Correlation between x and y '=round(cor(x,y),2) ) models = all_data %>% group_by(group) %>% do(mod = lm(y ~ x, data = .)) %>% do(data.frame(var = names(coef(.$mod)), coef = round(coef(.$mod),2), group = .$group)) %>% dcast(., group~var, value.var = "coef") summary_stats_and_linear_fit = cbind(summary_stats, data_frame("Linear regression" = paste0("y = ",models$"(Intercept)"," + ",models$x,"x"))) summary_stats_and_linear_fitgroup mean x Sample variance x mean y Sample variance y Correlation between x and y 1 SetA 9 11 7.5 4.1 0.82 2 SetB 9 11 7.5 4.1 0.82 3 SetC 9 11 7.5 4.1 0.82 4 SetD 9 11 7.5 4.1 0.82 Linear regression 1 y = 3 + 0.5x 2 y = 3 + 0.5x 3 y = 3 + 0.5x 4 y = 3 + 0.5x

If we look only at the simple summary statistics shown above, we would conclude that these four data sets are identical.

ggplot(all_data, aes(x=x,y=y)) +geom_point(shape = 21, colour = "red", fill = "orange", size = 3)+ ggtitle("Anscombe's data sets")+geom_smooth(method = "lm",se = FALSE,color='blue') + facet_wrap(~group, scales="free")

As we can see from the figures above, the datasets are very different from each other. The Anscombe’s quartet is a good example that shows that we have to visualize the relatonships, distributuions and outliers of our data and we shoul not rely only on simple statistics.

We should look at the data graphically before we start analysis. Further, we should understand that basic statistics properties can often fail to capture real-world complexities (such as outliers, relationships and complex distributions) since summary statistics do not capture all of the complexities of the data.