Plot differentially methylated regions (DMRs) hyper/hypo distributions by chromosome

Plot differentially methylated regions (DMRs) hyper/hypo distributions by chromosome.

Usage

plot_dmg_chrom(
  dmr_file,
  violin_scale = "count",
  violin_border = 0.5,
  point_shape = 8,
  point_size = 2,
  jitter_width = 0.2,
  hyper_color = "#ff880088",
  hypo_color = "#0088ff88"
)

Arguments

dmr_file

DEG table from MethylKit analysis.

violin_scale

Violin scale mode. ("count", "area", "width").

violin_border

Violin border width. (0.5).

point_shape

Points shape (0-25). (8).

point_size

Point size. (2).

jitter_width

Horizontal jitter width. (0.2).

hyper_color

Color for hyper-methylated points. ("#ff000088").

hypo_color

Color for hypo-methylated points. ("#00880088").

Value

A ggplot object of chromosome-wise DMR distributions.

Examples

# DMR results from Methylkit
dmr_file <- system.file(
    "extdata",
    "example.dmr",
    package = "GAnnoViz")

# Plot
plot_dmg_chrom(
  dmr_file = dmr_file,
  violin_scale = "count",
  violin_border = 0.5,
  point_shape = 8,
  point_size = 2,
  jitter_width = 0.2,
  hyper_color = "#ff880088",
  hypo_color = "#0088ff88"
)