The new R package, manhattanly, creates interactive manhattan plots using the plotly.js engine. The plots are usable from the R console, the RStudio viewer pane,
R Markdown documents, in Shiny apps, embeddable in websites and can be exported as
.png files. By hovering the mouse over a point, you can see annotation information such as the SNP identifier and GENE name. You can also drag a rectangle to zoom in on a region of interest and then export the image as a
Visit the package website for full details and example usage.
The following three lines of code will produce the plot below
install.packages("manhattanly") library(manhattanly) manhattanly(HapMap, snp = "SNP", gene = "GENE", annotation1 = "ZSCORE", annotation2 = "EFFECTSIZE", highlight = significantSNP)
This work is based on the qqman package by Stephen Turner. It produces similar manhattan plots as the
qqman::manhattan function; the main difference here is being able to interact with the plot, including extra annotation information and seamless integration with HTML.