shaman_gplot_map_score: plot a normlized hic map

In tanaylab/shaman: shaman - Sampling HiC contAct Matrices for Aparametric Normalization

plot a normlized hic map

Description

shaman_golot_map_score

Usage

shaman_gplot_map_score(
  points_score,
  interval_range = NA,
  rotate = TRUE,
  point_size = 0.1,
  add_axis = TRUE
)

Arguments

points_score	A dataframe containing the points (start1, start2) and their normalized score.
rotate	Binary flag, indicating if the plot should be rotated by 45 degrees.
point_size	Cex size of the points in the plot.
add_axis	Binary flag, indicating if axis should be added to plot.

Details

Plots observerved hic contact matrix color-coded by normalized scores. Data can be either extracted directly from score track or computed via the functions: score_hic_mat, shuffle_and_score_hic_mat

Value

gplot containing the map

Examples

# Set misha db to test
gsetroot(shaman_get_test_track_db())
points <- gextract("hic_score", gintervals.2d(2, 175e06, 178e06, 2, 175e06, 178e06), colnames = "score")
shaman_gplot_map_score(points)

tanaylab/shaman documentation built on April 2, 2022, 1:32 a.m.