manhattanPlot: D3 Manhattan Plot Visualizer

In nstrayer/D3ManhattanPlots: Interactive d3 manhattan plot viewer for genome wide association studies.

Description

This generates an interactive manhattan plot using d3.js. Mouse over snps to see name and pvalue. Now you don't have to waste your time writing R code to find significant snp identities.

Usage

manhattanPlot(dataset, width = NULL, height = NULL, snps_col = "SNP",
  pvals_col = "PVal", sigLine = TRUE, animationSpeed = 1000,
  logged = FALSE)

Arguments

dataset	Your data. Contains SNP names and PValues as columns of a dataframe.
width	Set custom width.
height	Set custom height.
snps_col	The name of the column of your dataframe containing the SNP names. Defaults to "SNP".
pvals_col	The name of the column of your dataframe containing the PValues. Defaults to "PVal".
sigLine	Draw a line indicating significance threshold according to a conservative bonferroni correction.
animationSpeed	How fast you want the program to animate in milliseconds. To turn off set to 0.
logged	Have the PValues already been -log10()'d? Defaults to false.

Examples

#Load sample dataset from the package.
d = sampleVals
#and plot. It's that easy.
manhattanPlot(d, sigLine = FALSE)

nstrayer/D3ManhattanPlots documentation built on May 24, 2019, 7:51 a.m.