makeManhattanPlot: Make a Manahattan plot of p-values

Description Usage Arguments Value Examples

Description

The Manhattan plots is compatible with wiggpleplotr read coverage and transcript strucutre plots. Can be appended to those using the cowplot::plot_grid() function.

Usage

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makeManhattanPlot(pvalues_df, region_coords, color_R2 = FALSE,
  data_track = TRUE)

Arguments

pvalues_df

Data frame of association p-values (required columns: track_id, p_nominal, pos)

region_coords

Start and end coordinates of the region to plot.

color_R2

Color the points according to R2 from the lead variant. Require R2 column in the pvalues_df data frame.

data_track

If TRUE, then remove all information from x-axis. Makes it easy to append to read coverage or transcript strcture plots using cowplot::plot_grid().

Value

gglot2 object

Examples

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data = dplyr::data_frame(track_id = "GWAS", pos = sample(c(1:1000), 200), p_nominal = runif(200, min = 0.0000001, 1))
makeManhattanPlot(data, c(1,1000), data_track = FALSE)

kauralasoo/wiggleplotr documentation built on July 21, 2021, 4:15 a.m.