A Scatterplot displays the value of 2 sets of data on 2 dimensions. Each dot represents an observation. The position on the X (horizontal) and Y (vertical) axis represents the values of the 2

variables. It is really useful to study the relationship between both variables. It is common to provide even more information using colors or shapes (to show groups, or a third variable). It is also

possible to map another variable to the size of each dot, what makes a bubble plot. If you have many dots and struggle with overplotting, consider using 2D density plot.




Ggplot2 Scatterplots

Use the geom_point() function of ggplot2 to build scatter plot in R. It allows to create basic scatterplots, and offers a lot of different customisations

Base R scatterplots

Of course baseR offers a really good option to build a scatterplot as well.

Manhattan plot

A Manhattan plot is a particular type of scatterplot used in genomics. The X axis displays the position of a genetic variant on the genome. Each chromosome is usually represented using a different color. The Y axis shows p-value of the association test with a phenotypic trait.

#104: interactive Manhattan plot