plot_summary_glyph: plot_summary_glyph

In jrboyd/seqtsne: Application of t-sne to NGS Genomic Signal Profiles

plot_summary_glyph

Description

plot_summary_glyph

Usage

plot_summary_glyph(
  summary_dt,
  x_points,
  y_points = x_points,
  xrng = c(-0.5, 0.5),
  yrng = c(-0.5, 0.5),
  ylim = NULL,
  p = NULL,
  N_floor = 0,
  N_ceiling = NULL,
  min_size = 0.3,
  return_data = FALSE,
  color_mapping = NULL,
  x_var = "x",
  y_var = "y",
  wide_var = "name",
  extra_vars = character()
)

Arguments

summary_dt	results from prep_summary()
x_points	numeric. number of grid points to use in x dimension.
y_points	numeric. number of grid points to use in y dimension.
xrng	view domain in x dimension.
yrng	view domain in y dimension.
ylim	ylimits per glyph
p	an existing ggplot to overlay images onto. Default of NULL starts a new plot.
N_floor	The value of N to consider 0. bins with N values <= N_floor will be ignored.
N_ceiling	The value of N to consider 1. bins with N values >= N_ceiling will have images drawn at full size.
min_size	Numeric (0, 1]. The minimum size images to draw. The default of .3 draws images for all bins with N values >= 30 N_floor to N_ceiling.
return_data	if TRUE, data.table that would have been used to create ggplot is returned instead.
color_mapping	mapping for scale_color_manual

Value

a ggplot containing glyphs of local profile summaries arranged in t-sne space.

Examples

data("profile_dt")
data("tsne_dt")
n_points = 12
summary_dt = prep_summary(profile_dt = profile_dt,
    position_dt = tsne_dt, x_points = n_points)
plot_summary_glyph(summary_dt,
    x_points = n_points)

jrboyd/seqtsne documentation built on Nov. 5, 2022, 6:37 a.m.